diff --git a/.DS_Store b/.DS_Store new file mode 100644 index 0000000..76567e6 Binary files /dev/null and b/.DS_Store differ diff --git a/Examples/(DMREF edits) DDM - Walkthrough - More in-depth .ipynb b/Examples/(DMREF edits) DDM - Walkthrough - More in-depth .ipynb new file mode 100644 index 0000000..1a7d382 --- /dev/null +++ b/Examples/(DMREF edits) DDM - Walkthrough - More in-depth .ipynb @@ -0,0 +1,5399 @@ +{ + "cells": [ + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "# More detailed walkthrough" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "See the simple walkthrough for a quicker introduction to the PyDDM package. Here, we will go into a little more depth." + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "
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+ "Dimensions: (lagtime: 40, q_y: 128, q_x: 128, q: 64, y: 128, x: 128, frames: 40)\n",
+ "Coordinates:\n",
+ " * lagtime (lagtime) float64 0.3774 0.7547 1.132 ... 198.1 226.4\n",
+ " framelag (frames) int64 1 2 3 4 5 6 7 ... 308 352 402 459 525 600\n",
+ " * q_y (q_y) float64 -1.939 -1.909 -1.879 ... 1.848 1.879 1.909\n",
+ " * q_x (q_x) float64 -1.939 -1.909 -1.879 ... 1.848 1.879 1.909\n",
+ " * q (q) float64 0.0 0.0303 0.0606 0.0909 ... 1.848 1.879 1.909\n",
+ " * y (y) int64 0 1 2 3 4 5 6 7 ... 121 122 123 124 125 126 127\n",
+ " * x (x) int64 0 1 2 3 4 5 6 7 ... 121 122 123 124 125 126 127\n",
+ "Dimensions without coordinates: frames\n",
+ "Data variables:\n",
+ " ddm_matrix_full (lagtime, q_y, q_x) float64 4.168e+03 ... 5.971e+03\n",
+ " ddm_matrix (lagtime, q) float64 0.0 2.989e+03 ... 8.758e+03 9.066e+03\n",
+ " first_image (y, x) float64 403.8 406.5 368.2 ... 398.2 456.8 297.2\n",
+ " alignment_factor (lagtime, q) float64 nan 6.123e-17 ... 0.08874 0.05498\n",
+ " avg_image_ft (q) float64 0.0 2.687e+05 3.972e+05 ... 3.757e+03 3.73e+03\n",
+ " num_pairs_per_dt (lagtime) int64 998 997 996 498 497 497 ... 7 6 5 4 3 2\n",
+ " B float64 7.676e+03\n",
+ " B_std float64 211.0\n",
+ " Amplitude (q) float64 -7.676e+03 5.298e+05 ... -161.6 -215.0\n",
+ " ISF (lagtime, q) float64 0.0 1.009 1.006 ... 11.46 7.696 7.467\n",
+ "Attributes: (12/25)\n",
+ " units: Intensity\n",
+ " lagtime: sec\n",
+ " q: μm$^{-1}$\n",
+ " x: pixels\n",
+ " y: pixels\n",
+ " info: ddm_matrix is the averages of FFT difference ima...\n",
+ " ... ...\n",
+ " split_into_4_rois: False\n",
+ " use_windowing_function: False\n",
+ " binning: True\n",
+ " bin_size: 2\n",
+ " central_angle: None\n",
+ " angle_range: None<xarray.Dataset>\n",
+ "Dimensions: (lagtime: 40, q_y: 128, q_x: 128, q: 64, y: 128, x: 128, frames: 40)\n",
+ "Coordinates:\n",
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+ " framelag (frames) int32 1 2 3 4 5 6 7 ... 308 352 402 459 525 599\n",
+ " * q_y (q_y) float64 -12.98 -12.78 -12.58 ... 12.37 12.58 12.78\n",
+ " * q_x (q_x) float64 -12.98 -12.78 -12.58 ... 12.37 12.58 12.78\n",
+ " * q (q) float64 0.0 0.2028 0.4057 0.6085 ... 12.37 12.58 12.78\n",
+ " * y (y) int32 0 1 2 3 4 5 6 7 ... 121 122 123 124 125 126 127\n",
+ " * x (x) int32 0 1 2 3 4 5 6 7 ... 121 122 123 124 125 126 127\n",
+ "Dimensions without coordinates: frames\n",
+ "Data variables:\n",
+ " ddm_matrix_full (lagtime, q_y, q_x) float64 194.5 183.5 ... 192.0 196.8\n",
+ " ddm_matrix (lagtime, q) float64 0.0 294.2 321.4 ... 207.8 201.1 200.4\n",
+ " first_image (y, x) float64 128.0 149.0 173.0 ... 175.0 229.0 215.0\n",
+ " avg_image_ft (q) float64 0.0 1.293e+05 5.225e+03 ... 105.3 104.7 105.3\n",
+ " num_pairs_per_dt (lagtime) int32 2999 2998 2997 1498 1498 ... 20 17 15 13\n",
+ " B float64 211.2\n",
+ " B_std float64 1.491\n",
+ " Amplitude (q) float64 -211.2 2.585e+05 1.024e+04 ... -1.699 -0.52\n",
+ " ISF (lagtime, q) float64 0.0 0.9997 0.9892 ... -4.952 -19.73\n",
+ "Attributes: (12/24)\n",
+ " units: Intensity\n",
+ " lagtime: sec\n",
+ " q: μm$^{-1}$\n",
+ " x: pixels\n",
+ " y: pixels\n",
+ " info: ddm_matrix is the averages of FFT difference ima...\n",
+ " ... ...\n",
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+ " use_windowing_function: no\n",
+ " binning: no\n",
+ " bin_size: 2\n",
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+ "Coordinates:\n",
+ " * lagtime (lagtime) float64 0.02398 0.04796 0.07194 ... 12.59 14.36\n",
+ " framelag (frames) int32 1 2 3 4 5 6 7 ... 308 352 402 459 525 599\n",
+ " * q_y (q_y) float64 -12.98 -12.78 -12.58 ... 12.37 12.58 12.78\n",
+ " * q_x (q_x) float64 -12.98 -12.78 -12.58 ... 12.37 12.58 12.78\n",
+ " * q (q) float64 0.0 0.2028 0.4057 0.6085 ... 12.37 12.58 12.78\n",
+ " * y (y) int32 0 1 2 3 4 5 6 7 ... 121 122 123 124 125 126 127\n",
+ " * x (x) int32 0 1 2 3 4 5 6 7 ... 121 122 123 124 125 126 127\n",
+ "Dimensions without coordinates: frames\n",
+ "Data variables:\n",
+ " ddm_matrix_full (lagtime, q_y, q_x) float64 194.5 183.5 ... 192.0 196.8\n",
+ " ddm_matrix (lagtime, q) float64 0.0 294.2 321.4 ... 207.8 201.1 200.4\n",
+ " first_image (y, x) float64 128.0 149.0 173.0 ... 175.0 229.0 215.0\n",
+ " avg_image_ft (q) float64 0.0 1.293e+05 5.225e+03 ... 105.3 104.7 105.3\n",
+ " num_pairs_per_dt (lagtime) int32 2999 2998 2997 1498 1498 ... 20 17 15 13\n",
+ " B int32 190\n",
+ " B_std float64 1.491\n",
+ " Amplitude (q) float64 -190.0 2.585e+05 1.026e+04 ... 19.47 20.65\n",
+ " ISF (lagtime, q) float64 0.0 0.9996 0.9872 ... 0.432 0.4966\n",
+ "Attributes: (12/24)\n",
+ " units: Intensity\n",
+ " lagtime: sec\n",
+ " q: μm$^{-1}$\n",
+ " x: pixels\n",
+ " y: pixels\n",
+ " info: ddm_matrix is the averages of FFT difference ima...\n",
+ " ... ...\n",
+ " split_into_4_rois: no\n",
+ " use_windowing_function: no\n",
+ " binning: no\n",
+ " bin_size: 2\n",
+ " central_angle: no\n",
+ " angle_range: noarray([ 0.023981, 0.047962, 0.071942, 0.095923, 0.119904, 0.143885,\n", + " 0.167866, 0.191847, 0.215827, 0.263789, 0.28777 , 0.335731,\n", + " 0.383693, 0.431655, 0.503597, 0.57554 , 0.647482, 0.743405,\n", + " 0.863309, 0.983213, 1.127098, 1.294964, 1.486811, 1.702638,\n", + " 1.942446, 2.206235, 2.541966, 2.901679, 3.309353, 3.788969,\n", + " 4.316547, 4.940048, 5.659472, 6.450839, 7.386091, 8.441247,\n", + " 9.640288, 11.007194, 12.589928, 14.364508])
array([ 1, 2, 3, 4, 5, 6, 7, 8, 9, 11, 12, 14, 16,\n", + " 18, 21, 24, 27, 31, 36, 41, 47, 54, 62, 71, 81, 92,\n", + " 106, 121, 138, 158, 180, 206, 236, 269, 308, 352, 402, 459, 525,\n", + " 599])
array([-12.981788, -12.778947, -12.576107, -12.373267, -12.170426, -11.967586,\n", + " -11.764745, -11.561905, -11.359064, -11.156224, -10.953383, -10.750543,\n", + " -10.547703, -10.344862, -10.142022, -9.939181, -9.736341, -9.5335 ,\n", + " -9.33066 , -9.12782 , -8.924979, -8.722139, -8.519298, -8.316458,\n", + " -8.113617, -7.910777, -7.707937, -7.505096, -7.302256, -7.099415,\n", + " -6.896575, -6.693734, -6.490894, -6.288053, -6.085213, -5.882373,\n", + " -5.679532, -5.476692, -5.273851, -5.071011, -4.86817 , -4.66533 ,\n", + " -4.46249 , -4.259649, -4.056809, -3.853968, -3.651128, -3.448287,\n", + " -3.245447, -3.042607, -2.839766, -2.636926, -2.434085, -2.231245,\n", + " -2.028404, -1.825564, -1.622723, -1.419883, -1.217043, -1.014202,\n", + " -0.811362, -0.608521, -0.405681, -0.20284 , 0. , 0.20284 ,\n", + " 0.405681, 0.608521, 0.811362, 1.014202, 1.217043, 1.419883,\n", + " 1.622723, 1.825564, 2.028404, 2.231245, 2.434085, 2.636926,\n", + " 2.839766, 3.042607, 3.245447, 3.448287, 3.651128, 3.853968,\n", + " 4.056809, 4.259649, 4.46249 , 4.66533 , 4.86817 , 5.071011,\n", + " 5.273851, 5.476692, 5.679532, 5.882373, 6.085213, 6.288053,\n", + " 6.490894, 6.693734, 6.896575, 7.099415, 7.302256, 7.505096,\n", + " 7.707937, 7.910777, 8.113617, 8.316458, 8.519298, 8.722139,\n", + " 8.924979, 9.12782 , 9.33066 , 9.5335 , 9.736341, 9.939181,\n", + " 10.142022, 10.344862, 10.547703, 10.750543, 10.953383, 11.156224,\n", + " 11.359064, 11.561905, 11.764745, 11.967586, 12.170426, 12.373267,\n", + " 12.576107, 12.778947])
array([-12.981788, -12.778947, -12.576107, -12.373267, -12.170426, -11.967586,\n", + " -11.764745, -11.561905, -11.359064, -11.156224, -10.953383, -10.750543,\n", + " -10.547703, -10.344862, -10.142022, -9.939181, -9.736341, -9.5335 ,\n", + " -9.33066 , -9.12782 , -8.924979, -8.722139, -8.519298, -8.316458,\n", + " -8.113617, -7.910777, -7.707937, -7.505096, -7.302256, -7.099415,\n", + " -6.896575, -6.693734, -6.490894, -6.288053, -6.085213, -5.882373,\n", + " -5.679532, -5.476692, -5.273851, -5.071011, -4.86817 , -4.66533 ,\n", + " -4.46249 , -4.259649, -4.056809, -3.853968, -3.651128, -3.448287,\n", + " -3.245447, -3.042607, -2.839766, -2.636926, -2.434085, -2.231245,\n", + " -2.028404, -1.825564, -1.622723, -1.419883, -1.217043, -1.014202,\n", + " -0.811362, -0.608521, -0.405681, -0.20284 , 0. , 0.20284 ,\n", + " 0.405681, 0.608521, 0.811362, 1.014202, 1.217043, 1.419883,\n", + " 1.622723, 1.825564, 2.028404, 2.231245, 2.434085, 2.636926,\n", + " 2.839766, 3.042607, 3.245447, 3.448287, 3.651128, 3.853968,\n", + " 4.056809, 4.259649, 4.46249 , 4.66533 , 4.86817 , 5.071011,\n", + " 5.273851, 5.476692, 5.679532, 5.882373, 6.085213, 6.288053,\n", + " 6.490894, 6.693734, 6.896575, 7.099415, 7.302256, 7.505096,\n", + " 7.707937, 7.910777, 8.113617, 8.316458, 8.519298, 8.722139,\n", + " 8.924979, 9.12782 , 9.33066 , 9.5335 , 9.736341, 9.939181,\n", + " 10.142022, 10.344862, 10.547703, 10.750543, 10.953383, 11.156224,\n", + " 11.359064, 11.561905, 11.764745, 11.967586, 12.170426, 12.373267,\n", + " 12.576107, 12.778947])
array([ 0. , 0.20284 , 0.405681, 0.608521, 0.811362, 1.014202,\n", + " 1.217043, 1.419883, 1.622723, 1.825564, 2.028404, 2.231245,\n", + " 2.434085, 2.636926, 2.839766, 3.042607, 3.245447, 3.448287,\n", + " 3.651128, 3.853968, 4.056809, 4.259649, 4.46249 , 4.66533 ,\n", + " 4.86817 , 5.071011, 5.273851, 5.476692, 5.679532, 5.882373,\n", + " 6.085213, 6.288053, 6.490894, 6.693734, 6.896575, 7.099415,\n", + " 7.302256, 7.505096, 7.707937, 7.910777, 8.113617, 8.316458,\n", + " 8.519298, 8.722139, 8.924979, 9.12782 , 9.33066 , 9.5335 ,\n", + " 9.736341, 9.939181, 10.142022, 10.344862, 10.547703, 10.750543,\n", + " 10.953383, 11.156224, 11.359064, 11.561905, 11.764745, 11.967586,\n", + " 12.170426, 12.373267, 12.576107, 12.778947])
array([ 0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13,\n", + " 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27,\n", + " 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41,\n", + " 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55,\n", + " 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69,\n", + " 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83,\n", + " 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97,\n", + " 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111,\n", + " 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125,\n", + " 126, 127])
array([ 0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13,\n", + " 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27,\n", + " 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41,\n", + " 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55,\n", + " 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69,\n", + " 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83,\n", + " 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97,\n", + " 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111,\n", + " 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125,\n", + " 126, 127])
array([[[194.53933642, 183.46865602, 189.88360447, ..., 185.13501835,\n", + " 189.88360447, 183.46865602],\n", + " [180.54977527, 184.19554752, 188.62431121, ..., 190.98754022,\n", + " 197.43847912, 186.62178023],\n", + " [192.70890797, 195.93098872, 189.09845247, ..., 190.12737145,\n", + " 189.83523821, 192.21421257],\n", + " ...,\n", + " [178.74506797, 186.95925279, 189.9972449 , ..., 190.31796269,\n", + " 193.86216905, 184.71498966],\n", + " [192.70890797, 192.21421257, 189.83523821, ..., 194.82373533,\n", + " 189.09845247, 195.93098872],\n", + " [180.54977527, 186.62178023, 197.43847912, ..., 189.320714 ,\n", + " 188.62431121, 184.19554752]],\n", + "\n", + " [[192.53678443, 184.98536047, 183.00178339, ..., 189.93758386,\n", + " 183.00178339, 184.98536047],\n", + " [182.22340665, 190.38208686, 185.90468391, ..., 188.79454507,\n", + " 188.52514631, 188.48204681],\n", + " [192.71415943, 196.71513926, 189.84504279, ..., 187.27424593,\n", + " 187.74393152, 186.99244495],\n", + "...\n", + " [224.60947387, 108.81451286, 189.02957545, ..., 137.44506309,\n", + " 348.30437843, 228.73579002],\n", + " [216.96920343, 166.46373793, 174.79469182, ..., 166.69258334,\n", + " 126.31953212, 140.52349943],\n", + " [164.20961535, 169.57957548, 133.76022938, ..., 125.77861768,\n", + " 159.69240297, 247.86589588]],\n", + "\n", + " [[ 75.33297495, 174.05006796, 155.35027909, ..., 233.98667431,\n", + " 155.35027909, 174.05006796],\n", + " [167.22701098, 196.84765156, 192.02546007, ..., 131.6447673 ,\n", + " 119.41026107, 235.53961919],\n", + " [132.75085561, 149.1865022 , 144.63052109, ..., 237.29431965,\n", + " 217.6141243 , 128.83335999],\n", + " ...,\n", + " [244.06105601, 195.72999615, 198.70767797, ..., 346.86825864,\n", + " 208.46454057, 182.9136883 ],\n", + " [132.75085561, 128.83335999, 217.6141243 , ..., 137.87697986,\n", + " 144.63052109, 149.1865022 ],\n", + " [167.22701098, 235.53961919, 119.41026107, ..., 165.83630492,\n", + " 192.02546007, 196.84765156]]])
array([[ 0. , 294.18943955, 321.41822078, ..., 192.93331805,\n", + " 193.46556826, 192.76671589],\n", + " [ 0. , 432.05714374, 490.9677582 , ..., 194.84772175,\n", + " 195.06799833, 194.40459328],\n", + " [ 0. , 535.36374381, 619.95883018, ..., 196.12616285,\n", + " 196.21094092, 195.79399928],\n", + " ...,\n", + " [ 0. , 3966.56056507, 5791.89215548, ..., 205.00017796,\n", + " 211.36062787, 212.61362392],\n", + " [ 0. , 4167.1712352 , 5456.14848464, ..., 203.8398704 ,\n", + " 205.38454854, 207.78696548],\n", + " [ 0. , 3716.77402137, 6067.88205869, ..., 207.76466695,\n", + " 201.06258553, 200.39635905]])
array([[128., 149., 173., ..., 178., 224., 255.],\n", + " [164., 163., 166., ..., 182., 197., 255.],\n", + " [208., 182., 175., ..., 178., 210., 255.],\n", + " ...,\n", + " [147., 162., 162., ..., 182., 196., 165.],\n", + " [201., 214., 234., ..., 189., 174., 178.],\n", + " [255., 255., 255., ..., 175., 229., 215.]])
array([0.00000000e+00, 1.29341509e+05, 5.22511731e+03, 5.86989569e+03,\n", + " 8.50478146e+03, 9.68446541e+03, 9.99103750e+03, 1.03319622e+04,\n", + " 1.00264087e+04, 1.08058729e+04, 1.16343568e+04, 1.38669622e+04,\n", + " 1.68988722e+04, 1.98642184e+04, 2.11800678e+04, 2.14311022e+04,\n", + " 2.06130601e+04, 1.80258072e+04, 1.42561639e+04, 1.04082328e+04,\n", + " 7.27537584e+03, 4.68549415e+03, 2.88015028e+03, 1.77658315e+03,\n", + " 1.06139768e+03, 6.83505113e+02, 4.97908069e+02, 4.18238638e+02,\n", + " 3.38383278e+02, 2.72050227e+02, 2.35672326e+02, 2.24525405e+02,\n", + " 2.03430129e+02, 1.78436880e+02, 1.65009527e+02, 1.49291391e+02,\n", + " 1.41201296e+02, 1.33121051e+02, 1.29764821e+02, 1.28159612e+02,\n", + " 1.24131175e+02, 1.24052104e+02, 1.21220015e+02, 1.19076951e+02,\n", + " 1.17509287e+02, 1.15310101e+02, 1.15268069e+02, 1.12572652e+02,\n", + " 1.11849673e+02, 1.11765243e+02, 1.10247178e+02, 1.09703002e+02,\n", + " 1.08834403e+02, 1.09662333e+02, 1.08597899e+02, 1.07728419e+02,\n", + " 1.07789289e+02, 1.06907057e+02, 1.07036538e+02, 1.05981891e+02,\n", + " 1.05125261e+02, 1.05313067e+02, 1.04737380e+02, 1.05326832e+02])
array([2999, 2998, 2997, 1498, 1498, 1497, 998, 998, 997, 748, 747,\n", + " 598, 498, 497, 426, 372, 331, 270, 247, 212, 185, 164,\n", + " 140, 123, 109, 94, 81, 71, 63, 54, 47, 41, 35,\n", + " 31, 27, 23, 20, 17, 15, 13])
array(190)
array(1.49105881)
array([-1.90000000e+02, 2.58493018e+05, 1.02602346e+04, 1.15497914e+04,\n", + " 1.68195629e+04, 1.91789308e+04, 1.97920750e+04, 2.04739243e+04,\n", + " 1.98628174e+04, 2.14217457e+04, 2.30787136e+04, 2.75439244e+04,\n", + " 3.36077443e+04, 3.95384367e+04, 4.21701356e+04, 4.26722045e+04,\n", + " 4.10361202e+04, 3.58616144e+04, 2.83223278e+04, 2.06264656e+04,\n", + " 1.43607517e+04, 9.18098831e+03, 5.57030056e+03, 3.36316630e+03,\n", + " 1.93279536e+03, 1.17701023e+03, 8.05816138e+02, 6.46477276e+02,\n", + " 4.86766556e+02, 3.54100454e+02, 2.81344652e+02, 2.59050811e+02,\n", + " 2.16860258e+02, 1.66873759e+02, 1.40019053e+02, 1.08582782e+02,\n", + " 9.24025916e+01, 7.62421017e+01, 6.95296420e+01, 6.63192247e+01,\n", + " 5.82623495e+01, 5.81042089e+01, 5.24400299e+01, 4.81539029e+01,\n", + " 4.50185732e+01, 4.06202012e+01, 4.05361388e+01, 3.51453041e+01,\n", + " 3.36993461e+01, 3.35304868e+01, 3.04943557e+01, 2.94060037e+01,\n", + " 2.76688057e+01, 2.93246657e+01, 2.71957975e+01, 2.54568387e+01,\n", + " 2.55785786e+01, 2.38141133e+01, 2.40730764e+01, 2.19637827e+01,\n", + " 2.02505220e+01, 2.06261336e+01, 1.94747592e+01, 2.06536633e+01])
array([[ 0. , 0.99959694, 0.9871915 , ..., 0.85778634,\n", + " 0.82204821, 0.86604236],\n", + " [ 0. , 0.99906358, 0.97066658, ..., 0.76497186,\n", + " 0.7397658 , 0.78674034],\n", + " [ 0. , 0.99866393, 0.95809464, ..., 0.70299025,\n", + " 0.6810774 , 0.71946869],\n", + " ...,\n", + " [ 0. , 0.98539009, 0.4540191 , ..., 0.27275862,\n", + " -0.09683656, -0.09489651],\n", + " [ 0. , 0.98461401, 0.4867419 , ..., 0.32901286,\n", + " 0.21002625, 0.13879852],\n", + " [ 0. , 0.98635641, 0.42712011, ..., 0.13873015,\n", + " 0.43195264, 0.49663365]])
| \n", + " | Initial guess | \n", + "Minimum | \n", + "Maximum | \n", + "
|---|---|---|---|
| Amplitude | \n", + "100.0 | \n", + "1.000 | \n", + "1000000.0 | \n", + "
| Tau | \n", + "1.0 | \n", + "0.001 | \n", + "10.0 | \n", + "
| Background | \n", + "25000.0 | \n", + "0.000 | \n", + "10000000.0 | \n", + "
| StretchingExp | \n", + "1.0 | \n", + "0.500 | \n", + "1.1 | \n", + "
<xarray.Dataset>\n",
+ "Dimensions: (parameter: 4, q: 64, lagtime: 40)\n",
+ "Coordinates:\n",
+ " * parameter (parameter) <U13 'Amplitude' 'Tau' ... 'StretchingExp'\n",
+ " * q (q) float64 0.0 0.2028 0.4057 0.6085 ... 12.37 12.58 12.78\n",
+ " * lagtime (lagtime) float64 0.02398 0.04796 0.07194 ... 12.59 14.36\n",
+ "Data variables:\n",
+ " parameters (parameter, q) float64 1.0 2.326e+05 ... 0.705 0.7446\n",
+ " theory (lagtime, q) float64 10.0 315.0 338.5 ... 206.7 206.8 206.9\n",
+ " isf_data (lagtime, q) float64 0.0 0.9996 0.9872 ... 0.432 0.4966\n",
+ " ddm_matrix_data (lagtime, q) float64 0.0 294.2 321.4 ... 207.8 201.1 200.4\n",
+ " A (q) float64 -190.0 2.585e+05 1.026e+04 ... 19.47 20.65\n",
+ " B int32 190\n",
+ "Attributes: (12/18)\n",
+ " model: DDM Matrix - Single Exponential\n",
+ " data_to_use: DDM Matrix\n",
+ " initial_params_dict: ["{'n': 0, 'value': 100.0, 'limits': [1.0...\n",
+ " effective_diffusion_coeff: 0.6168642315520588\n",
+ " tau_vs_q_slope: [-1.98005917]\n",
+ " msd_alpha: [1.01007082]\n",
+ " ... ...\n",
+ " DataDirectory: C:/Users/rmcgorty/Documents/GitHub/PyDDM/...\n",
+ " FileName: images_nobin_40x_128x128_8bit.tif\n",
+ " pixel_size: 0.242\n",
+ " frame_rate: 41.7\n",
+ " BackgroundMethod: None\n",
+ " OverlapMethod: 2array(['Amplitude', 'Tau', 'Background', 'StretchingExp'], dtype='<U13')
array([ 0. , 0.20284 , 0.405681, 0.608521, 0.811362, 1.014202,\n", + " 1.217043, 1.419883, 1.622723, 1.825564, 2.028404, 2.231245,\n", + " 2.434085, 2.636926, 2.839766, 3.042607, 3.245447, 3.448287,\n", + " 3.651128, 3.853968, 4.056809, 4.259649, 4.46249 , 4.66533 ,\n", + " 4.86817 , 5.071011, 5.273851, 5.476692, 5.679532, 5.882373,\n", + " 6.085213, 6.288053, 6.490894, 6.693734, 6.896575, 7.099415,\n", + " 7.302256, 7.505096, 7.707937, 7.910777, 8.113617, 8.316458,\n", + " 8.519298, 8.722139, 8.924979, 9.12782 , 9.33066 , 9.5335 ,\n", + " 9.736341, 9.939181, 10.142022, 10.344862, 10.547703, 10.750543,\n", + " 10.953383, 11.156224, 11.359064, 11.561905, 11.764745, 11.967586,\n", + " 12.170426, 12.373267, 12.576107, 12.778947])
array([ 0.023981, 0.047962, 0.071942, 0.095923, 0.119904, 0.143885,\n", + " 0.167866, 0.191847, 0.215827, 0.263789, 0.28777 , 0.335731,\n", + " 0.383693, 0.431655, 0.503597, 0.57554 , 0.647482, 0.743405,\n", + " 0.863309, 0.983213, 1.127098, 1.294964, 1.486811, 1.702638,\n", + " 1.942446, 2.206235, 2.541966, 2.901679, 3.309353, 3.788969,\n", + " 4.316547, 4.940048, 5.659472, 6.450839, 7.386091, 8.441247,\n", + " 9.640288, 11.007194, 12.589928, 14.364508])
array([[1.00000000e+00, 2.32643716e+05, 9.23421116e+03, 1.04425917e+04,\n", + " 1.65958488e+04, 1.87741627e+04, 2.01262093e+04, 2.02699356e+04,\n", + " 1.93938141e+04, 2.14281346e+04, 2.33743051e+04, 2.74778139e+04,\n", + " 3.34522708e+04, 3.95131276e+04, 4.17820421e+04, 4.20664112e+04,\n", + " 4.07569060e+04, 3.57098235e+04, 2.84201318e+04, 2.06082054e+04,\n", + " 1.43591503e+04, 9.28277724e+03, 5.65119988e+03, 3.47725293e+03,\n", + " 2.06716941e+03, 1.22311564e+03, 8.76927421e+02, 6.90124480e+02,\n", + " 5.35443212e+02, 3.89510499e+02, 3.09479117e+02, 2.84955892e+02,\n", + " 2.38546284e+02, 1.83561135e+02, 1.54020959e+02, 1.19441061e+02,\n", + " 9.04713776e+01, 7.32803000e+01, 6.33150620e+01, 5.96873022e+01,\n", + " 5.24361145e+01, 5.22937881e+01, 4.71960269e+01, 4.33385126e+01,\n", + " 4.05167159e+01, 3.65581811e+01, 3.64825249e+01, 3.16307736e+01,\n", + " 3.03294115e+01, 3.01774381e+01, 2.74449201e+01, 2.64654033e+01,\n", + " 2.49019252e+01, 2.63921992e+01, 2.44762177e+01, 2.29111548e+01,\n", + " 2.30207207e+01, 2.14327020e+01, 2.16657687e+01, 1.97674044e+01,\n", + " 1.82254698e+01, 1.85635203e+01, 1.75272833e+01, 1.85882970e+01],\n", + " [1.00000000e+01, 1.00000000e+01, 1.00000000e+01, 3.86806763e+00,\n", + " 2.55606871e+00, 1.42436450e+00, 1.03553610e+00, 7.42218975e-01,\n", + " 5.52015441e-01, 4.65091456e-01, 3.96220641e-01, 3.21261104e-01,\n", + " 2.90633158e-01, 2.48487749e-01, 2.13902731e-01, 1.92959729e-01,\n", + "...\n", + " 1.88872932e+02, 1.88581861e+02, 1.89252080e+02, 1.88386083e+02,\n", + " 1.88981350e+02, 1.87924484e+02, 1.87679912e+02, 1.87688222e+02,\n", + " 1.87969231e+02, 1.87747866e+02, 1.88648024e+02, 1.89106434e+02,\n", + " 1.89427805e+02, 1.88135686e+02, 1.89288727e+02, 1.88358949e+02],\n", + " [1.10000000e+00, 1.10000000e+00, 5.61916398e-01, 7.10762250e-01,\n", + " 8.11577778e-01, 9.09132560e-01, 9.11750595e-01, 9.52912598e-01,\n", + " 9.57434030e-01, 9.79312824e-01, 9.69590565e-01, 1.00961966e+00,\n", + " 1.01501443e+00, 1.04072569e+00, 1.03076437e+00, 1.03128893e+00,\n", + " 1.04638759e+00, 1.04446796e+00, 1.04406777e+00, 1.05492850e+00,\n", + " 1.03622512e+00, 1.02767912e+00, 1.01091421e+00, 9.75980332e-01,\n", + " 9.19591679e-01, 9.11770097e-01, 8.60156028e-01, 8.59201102e-01,\n", + " 7.98604397e-01, 7.94550993e-01, 7.81941075e-01, 7.57373189e-01,\n", + " 7.63314218e-01, 7.33617919e-01, 6.92531764e-01, 6.47957554e-01,\n", + " 6.96849842e-01, 7.07400255e-01, 7.43780117e-01, 6.79390232e-01,\n", + " 7.06264342e-01, 6.76778617e-01, 6.50957583e-01, 6.69603282e-01,\n", + " 6.90556765e-01, 6.62360386e-01, 7.05250808e-01, 6.76426769e-01,\n", + " 7.21412072e-01, 7.22245349e-01, 6.46001050e-01, 6.55461922e-01,\n", + " 6.71431019e-01, 6.24491328e-01, 6.21572597e-01, 6.59109603e-01,\n", + " 6.24070701e-01, 6.10418310e-01, 6.90625300e-01, 6.72248157e-01,\n", + " 7.68715009e-01, 7.20353863e-01, 7.04971605e-01, 7.44597078e-01]])
array([[1.00013109e+01, 3.14969814e+02, 3.38493932e+02, ...,\n", + " 1.92529023e+02, 1.93101914e+02, 1.92287259e+02],\n", + " [1.00028078e+01, 6.63227156e+02, 4.80661006e+02, ...,\n", + " 1.94802592e+02, 1.95066214e+02, 1.94459478e+02],\n", + " [1.00043826e+01, 1.02958077e+03, 5.91814578e+02, ...,\n", + " 1.96469200e+02, 1.96522549e+02, 1.96093000e+02],\n", + " ...,\n", + " [1.06708801e+01, 1.56086044e+05, 6.05266368e+03, ...,\n", + " 2.06699206e+02, 2.06816010e+02, 2.06947246e+02],\n", + " [1.07242679e+01, 1.68506368e+05, 6.30794233e+03, ...,\n", + " 2.06699206e+02, 2.06816010e+02, 2.06947246e+02],\n", + " [1.07744986e+01, 1.80192244e+05, 6.55592511e+03, ...,\n", + " 2.06699206e+02, 2.06816010e+02, 2.06947246e+02]])
array([[ 0. , 0.99959694, 0.9871915 , ..., 0.85778634,\n", + " 0.82204821, 0.86604236],\n", + " [ 0. , 0.99906358, 0.97066658, ..., 0.76497186,\n", + " 0.7397658 , 0.78674034],\n", + " [ 0. , 0.99866393, 0.95809464, ..., 0.70299025,\n", + " 0.6810774 , 0.71946869],\n", + " ...,\n", + " [ 0. , 0.98539009, 0.4540191 , ..., 0.27275862,\n", + " -0.09683656, -0.09489651],\n", + " [ 0. , 0.98461401, 0.4867419 , ..., 0.32901286,\n", + " 0.21002625, 0.13879852],\n", + " [ 0. , 0.98635641, 0.42712011, ..., 0.13873015,\n", + " 0.43195264, 0.49663365]])
array([[ 0. , 294.18943955, 321.41822078, ..., 192.93331805,\n", + " 193.46556826, 192.76671589],\n", + " [ 0. , 432.05714374, 490.9677582 , ..., 194.84772175,\n", + " 195.06799833, 194.40459328],\n", + " [ 0. , 535.36374381, 619.95883018, ..., 196.12616285,\n", + " 196.21094092, 195.79399928],\n", + " ...,\n", + " [ 0. , 3966.56056507, 5791.89215548, ..., 205.00017796,\n", + " 211.36062787, 212.61362392],\n", + " [ 0. , 4167.1712352 , 5456.14848464, ..., 203.8398704 ,\n", + " 205.38454854, 207.78696548],\n", + " [ 0. , 3716.77402137, 6067.88205869, ..., 207.76466695,\n", + " 201.06258553, 200.39635905]])
array([-1.90000000e+02, 2.58493018e+05, 1.02602346e+04, 1.15497914e+04,\n", + " 1.68195629e+04, 1.91789308e+04, 1.97920750e+04, 2.04739243e+04,\n", + " 1.98628174e+04, 2.14217457e+04, 2.30787136e+04, 2.75439244e+04,\n", + " 3.36077443e+04, 3.95384367e+04, 4.21701356e+04, 4.26722045e+04,\n", + " 4.10361202e+04, 3.58616144e+04, 2.83223278e+04, 2.06264656e+04,\n", + " 1.43607517e+04, 9.18098831e+03, 5.57030056e+03, 3.36316630e+03,\n", + " 1.93279536e+03, 1.17701023e+03, 8.05816138e+02, 6.46477276e+02,\n", + " 4.86766556e+02, 3.54100454e+02, 2.81344652e+02, 2.59050811e+02,\n", + " 2.16860258e+02, 1.66873759e+02, 1.40019053e+02, 1.08582782e+02,\n", + " 9.24025916e+01, 7.62421017e+01, 6.95296420e+01, 6.63192247e+01,\n", + " 5.82623495e+01, 5.81042089e+01, 5.24400299e+01, 4.81539029e+01,\n", + " 4.50185732e+01, 4.06202012e+01, 4.05361388e+01, 3.51453041e+01,\n", + " 3.36993461e+01, 3.35304868e+01, 3.04943557e+01, 2.94060037e+01,\n", + " 2.76688057e+01, 2.93246657e+01, 2.71957975e+01, 2.54568387e+01,\n", + " 2.55785786e+01, 2.38141133e+01, 2.40730764e+01, 2.19637827e+01,\n", + " 2.02505220e+01, 2.06261336e+01, 1.94747592e+01, 2.06536633e+01])
array(190)
<xarray.Dataset>\n",
+ "Dimensions: (parameter: 4, q: 64, lagtime: 40)\n",
+ "Coordinates:\n",
+ " * parameter (parameter) <U13 'Amplitude' 'Tau' ... 'StretchingExp'\n",
+ " * q (q) float64 0.0 0.2028 0.4057 0.6085 ... 12.37 12.58 12.78\n",
+ " * lagtime (lagtime) float64 0.02398 0.04796 0.07194 ... 12.59 14.36\n",
+ "Data variables:\n",
+ " parameters (parameter, q) float64 1.0 2.326e+05 9.894e+03 ... 0.5 0.5\n",
+ " theory (lagtime, q) float64 10.0 152.4 361.6 ... 202.0 201.7 201.6\n",
+ " isf_data (lagtime, q) float64 0.0 0.9996 0.9872 ... 0.432 0.4966\n",
+ " ddm_matrix_data (lagtime, q) float64 0.0 294.2 321.4 ... 207.8 201.1 200.4\n",
+ " A (q) float64 -190.0 2.585e+05 1.026e+04 ... 19.47 20.65\n",
+ " B int32 190\n",
+ "Attributes: (12/18)\n",
+ " model: DDM Matrix - Single Exponential\n",
+ " data_to_use: DDM Matrix\n",
+ " initial_params_dict: ["{'n': 0, 'value': 100.0, 'limits': [1.0...\n",
+ " effective_diffusion_coeff: 0.6584064996820138\n",
+ " tau_vs_q_slope: [-1.89886818]\n",
+ " msd_alpha: [1.053259]\n",
+ " ... ...\n",
+ " DataDirectory: C:/Users/rmcgorty/Documents/GitHub/PyDDM/...\n",
+ " FileName: images_nobin_40x_128x128_8bit.tif\n",
+ " pixel_size: 0.242\n",
+ " frame_rate: 41.7\n",
+ " BackgroundMethod: None\n",
+ " OverlapMethod: 2array(['Amplitude', 'Tau', 'Background', 'StretchingExp'], dtype='<U13')
array([ 0. , 0.20284 , 0.405681, 0.608521, 0.811362, 1.014202,\n", + " 1.217043, 1.419883, 1.622723, 1.825564, 2.028404, 2.231245,\n", + " 2.434085, 2.636926, 2.839766, 3.042607, 3.245447, 3.448287,\n", + " 3.651128, 3.853968, 4.056809, 4.259649, 4.46249 , 4.66533 ,\n", + " 4.86817 , 5.071011, 5.273851, 5.476692, 5.679532, 5.882373,\n", + " 6.085213, 6.288053, 6.490894, 6.693734, 6.896575, 7.099415,\n", + " 7.302256, 7.505096, 7.707937, 7.910777, 8.113617, 8.316458,\n", + " 8.519298, 8.722139, 8.924979, 9.12782 , 9.33066 , 9.5335 ,\n", + " 9.736341, 9.939181, 10.142022, 10.344862, 10.547703, 10.750543,\n", + " 10.953383, 11.156224, 11.359064, 11.561905, 11.764745, 11.967586,\n", + " 12.170426, 12.373267, 12.576107, 12.778947])
array([ 0.023981, 0.047962, 0.071942, 0.095923, 0.119904, 0.143885,\n", + " 0.167866, 0.191847, 0.215827, 0.263789, 0.28777 , 0.335731,\n", + " 0.383693, 0.431655, 0.503597, 0.57554 , 0.647482, 0.743405,\n", + " 0.863309, 0.983213, 1.127098, 1.294964, 1.486811, 1.702638,\n", + " 1.942446, 2.206235, 2.541966, 2.901679, 3.309353, 3.788969,\n", + " 4.316547, 4.940048, 5.659472, 6.450839, 7.386091, 8.441247,\n", + " 9.640288, 11.007194, 12.589928, 14.364508])
array([[1.00000000e+00, 2.32643716e+05, 9.89373199e+03, 1.04425914e+04,\n", + " 1.65958403e+04, 1.87741626e+04, 2.01262063e+04, 2.02699350e+04,\n", + " 1.93938141e+04, 2.14281346e+04, 2.33743051e+04, 2.74778140e+04,\n", + " 3.34522708e+04, 3.95131276e+04, 4.17820422e+04, 4.20664111e+04,\n", + " 4.07569060e+04, 3.57098235e+04, 2.84201318e+04, 2.06082054e+04,\n", + " 1.43591503e+04, 9.28277724e+03, 5.65119988e+03, 3.47725293e+03,\n", + " 2.06716941e+03, 1.22311564e+03, 8.76927351e+02, 6.90124615e+02,\n", + " 5.35443212e+02, 3.89510499e+02, 3.09479117e+02, 2.84955892e+02,\n", + " 2.38546284e+02, 1.83561135e+02, 1.54020959e+02, 1.19441061e+02,\n", + " 1.01642851e+02, 8.38663118e+01, 7.64826062e+01, 7.29511472e+01,\n", + " 6.40885844e+01, 6.39146298e+01, 5.76840329e+01, 5.29692932e+01,\n", + " 4.95204305e+01, 4.46822213e+01, 4.45897527e+01, 3.86598345e+01,\n", + " 3.70692807e+01, 3.68835355e+01, 3.35437912e+01, 3.23466041e+01,\n", + " 3.04356863e+01, 3.22571323e+01, 2.99153772e+01, 2.80025225e+01,\n", + " 2.81364364e+01, 2.61955246e+01, 2.64803840e+01, 2.41601609e+01,\n", + " 2.22755742e+01, 2.26887470e+01, 2.14222352e+01, 2.27190297e+01],\n", + " [1.00000000e+01, 8.10157916e+01, 1.53295774e+01, 3.86806746e+00,\n", + " 2.55606574e+00, 1.42436448e+00, 1.03553582e+00, 7.42218942e-01,\n", + " 5.52015441e-01, 4.65091456e-01, 3.96220640e-01, 3.21261107e-01,\n", + " 2.90633158e-01, 2.48487749e-01, 2.13902731e-01, 1.92959728e-01,\n", + "...\n", + " 1.75920784e+02, 1.75462434e+02, 1.77385444e+02, 1.77265516e+02,\n", + " 1.78234387e+02, 1.76044620e+02, 1.76896189e+02, 1.77554782e+02,\n", + " 1.77379772e+02, 1.78268340e+02, 1.78255143e+02, 1.79515166e+02,\n", + " 1.79915464e+02, 1.79294718e+02, 1.80274342e+02, 1.78884768e+02],\n", + " [1.10000000e+00, 1.10000000e+00, 5.13758578e-01, 7.10762358e-01,\n", + " 8.11578193e-01, 9.09132572e-01, 9.11750832e-01, 9.52912637e-01,\n", + " 9.57434030e-01, 9.79312823e-01, 9.69590566e-01, 1.00961966e+00,\n", + " 1.01501443e+00, 1.04072569e+00, 1.03076437e+00, 1.03128894e+00,\n", + " 1.04638759e+00, 1.04446796e+00, 1.04406777e+00, 1.05492850e+00,\n", + " 1.03622512e+00, 1.02767912e+00, 1.01091421e+00, 9.75980332e-01,\n", + " 9.19591679e-01, 9.11770096e-01, 8.60156128e-01, 8.59200858e-01,\n", + " 7.98604406e-01, 7.94551000e-01, 7.81941080e-01, 7.57373234e-01,\n", + " 7.63314258e-01, 7.43304844e-01, 7.05794318e-01, 6.59952326e-01,\n", + " 6.13021408e-01, 5.87587545e-01, 5.74890649e-01, 5.32364098e-01,\n", + " 5.32295111e-01, 5.18818644e-01, 5.05445433e-01, 5.02325262e-01,\n", + " 5.10491451e-01, 5.00000000e-01, 5.05828686e-01, 5.00000000e-01,\n", + " 5.00000000e-01, 5.00000000e-01, 5.00000000e-01, 5.00000000e-01,\n", + " 5.00000000e-01, 5.00000000e-01, 5.00000000e-01, 5.00000000e-01,\n", + " 5.00000000e-01, 5.00000000e-01, 5.00000000e-01, 5.00000000e-01,\n", + " 5.00000000e-01, 5.00000000e-01, 5.00000000e-01, 5.00000000e-01]])
array([[1.00013109e+01, 1.52384616e+02, 3.61633798e+02, ...,\n", + " 1.94039740e+02, 1.94324216e+02, 1.93918518e+02],\n", + " [1.00028078e+01, 1.87321112e+02, 5.08207808e+02, ...,\n", + " 1.96840289e+02, 1.96957227e+02, 1.96698370e+02],\n", + " [1.00043826e+01, 2.24123965e+02, 6.19965793e+02, ...,\n", + " 1.98299076e+02, 1.98319989e+02, 1.98127945e+02],\n", + " ...,\n", + " [1.06708801e+01, 2.46219857e+04, 5.64750065e+03, ...,\n", + " 2.01983465e+02, 2.01696577e+02, 2.01603797e+02],\n", + " [1.07242679e+01, 2.82783354e+04, 5.89647837e+03, ...,\n", + " 2.01983465e+02, 2.01696577e+02, 2.01603797e+02],\n", + " [1.07744986e+01, 3.23548994e+04, 6.14246430e+03, ...,\n", + " 2.01983465e+02, 2.01696577e+02, 2.01603797e+02]])
array([[ 0. , 0.99959694, 0.9871915 , ..., 0.85778634,\n", + " 0.82204821, 0.86604236],\n", + " [ 0. , 0.99906358, 0.97066658, ..., 0.76497186,\n", + " 0.7397658 , 0.78674034],\n", + " [ 0. , 0.99866393, 0.95809464, ..., 0.70299025,\n", + " 0.6810774 , 0.71946869],\n", + " ...,\n", + " [ 0. , 0.98539009, 0.4540191 , ..., 0.27275862,\n", + " -0.09683656, -0.09489651],\n", + " [ 0. , 0.98461401, 0.4867419 , ..., 0.32901286,\n", + " 0.21002625, 0.13879852],\n", + " [ 0. , 0.98635641, 0.42712011, ..., 0.13873015,\n", + " 0.43195264, 0.49663365]])
array([[ 0. , 294.18943955, 321.41822078, ..., 192.93331805,\n", + " 193.46556826, 192.76671589],\n", + " [ 0. , 432.05714374, 490.9677582 , ..., 194.84772175,\n", + " 195.06799833, 194.40459328],\n", + " [ 0. , 535.36374381, 619.95883018, ..., 196.12616285,\n", + " 196.21094092, 195.79399928],\n", + " ...,\n", + " [ 0. , 3966.56056507, 5791.89215548, ..., 205.00017796,\n", + " 211.36062787, 212.61362392],\n", + " [ 0. , 4167.1712352 , 5456.14848464, ..., 203.8398704 ,\n", + " 205.38454854, 207.78696548],\n", + " [ 0. , 3716.77402137, 6067.88205869, ..., 207.76466695,\n", + " 201.06258553, 200.39635905]])
array([-1.90000000e+02, 2.58493018e+05, 1.02602346e+04, 1.15497914e+04,\n", + " 1.68195629e+04, 1.91789308e+04, 1.97920750e+04, 2.04739243e+04,\n", + " 1.98628174e+04, 2.14217457e+04, 2.30787136e+04, 2.75439244e+04,\n", + " 3.36077443e+04, 3.95384367e+04, 4.21701356e+04, 4.26722045e+04,\n", + " 4.10361202e+04, 3.58616144e+04, 2.83223278e+04, 2.06264656e+04,\n", + " 1.43607517e+04, 9.18098831e+03, 5.57030056e+03, 3.36316630e+03,\n", + " 1.93279536e+03, 1.17701023e+03, 8.05816138e+02, 6.46477276e+02,\n", + " 4.86766556e+02, 3.54100454e+02, 2.81344652e+02, 2.59050811e+02,\n", + " 2.16860258e+02, 1.66873759e+02, 1.40019053e+02, 1.08582782e+02,\n", + " 9.24025916e+01, 7.62421017e+01, 6.95296420e+01, 6.63192247e+01,\n", + " 5.82623495e+01, 5.81042089e+01, 5.24400299e+01, 4.81539029e+01,\n", + " 4.50185732e+01, 4.06202012e+01, 4.05361388e+01, 3.51453041e+01,\n", + " 3.36993461e+01, 3.35304868e+01, 3.04943557e+01, 2.94060037e+01,\n", + " 2.76688057e+01, 2.93246657e+01, 2.71957975e+01, 2.54568387e+01,\n", + " 2.55785786e+01, 2.38141133e+01, 2.40730764e+01, 2.19637827e+01,\n", + " 2.02505220e+01, 2.06261336e+01, 1.94747592e+01, 2.06536633e+01])
array(190)
<xarray.Dataset>\n",
+ "Dimensions: (parameter: 4, q: 64, lagtime: 40)\n",
+ "Coordinates:\n",
+ " * parameter (parameter) <U13 'Amplitude' 'Tau' ... 'StretchingExp'\n",
+ " * q (q) float64 0.0 0.2028 0.4057 0.6085 ... 12.37 12.58 12.78\n",
+ " * lagtime (lagtime) float64 0.02398 0.04796 0.07194 ... 12.59 14.36\n",
+ "Data variables:\n",
+ " parameters (parameter, q) float64 1.0 2.326e+05 ... 0.85 0.85\n",
+ " theory (lagtime, q) float64 10.0 78.85 304.9 ... 200.8 200.6 200.4\n",
+ " isf_data (lagtime, q) float64 0.0 0.9996 0.9872 ... 0.432 0.4966\n",
+ " ddm_matrix_data (lagtime, q) float64 0.0 294.2 321.4 ... 207.8 201.1 200.4\n",
+ " A (q) float64 -190.0 2.585e+05 1.026e+04 ... 19.47 20.65\n",
+ " B int32 190\n",
+ "Attributes: (12/18)\n",
+ " model: DDM Matrix - Single Exponential\n",
+ " data_to_use: DDM Matrix\n",
+ " initial_params_dict: ["{'n': 0, 'value': 100.0, 'limits': [1.0...\n",
+ " effective_diffusion_coeff: 0.6779463827208101\n",
+ " tau_vs_q_slope: [-1.84532034]\n",
+ " msd_alpha: [1.08382266]\n",
+ " ... ...\n",
+ " DataDirectory: C:/Users/rmcgorty/Documents/GitHub/PyDDM/...\n",
+ " FileName: images_nobin_40x_128x128_8bit.tif\n",
+ " pixel_size: 0.242\n",
+ " frame_rate: 41.7\n",
+ " BackgroundMethod: None\n",
+ " OverlapMethod: 2array(['Amplitude', 'Tau', 'Background', 'StretchingExp'], dtype='<U13')
array([ 0. , 0.20284 , 0.405681, 0.608521, 0.811362, 1.014202,\n", + " 1.217043, 1.419883, 1.622723, 1.825564, 2.028404, 2.231245,\n", + " 2.434085, 2.636926, 2.839766, 3.042607, 3.245447, 3.448287,\n", + " 3.651128, 3.853968, 4.056809, 4.259649, 4.46249 , 4.66533 ,\n", + " 4.86817 , 5.071011, 5.273851, 5.476692, 5.679532, 5.882373,\n", + " 6.085213, 6.288053, 6.490894, 6.693734, 6.896575, 7.099415,\n", + " 7.302256, 7.505096, 7.707937, 7.910777, 8.113617, 8.316458,\n", + " 8.519298, 8.722139, 8.924979, 9.12782 , 9.33066 , 9.5335 ,\n", + " 9.736341, 9.939181, 10.142022, 10.344862, 10.547703, 10.750543,\n", + " 10.953383, 11.156224, 11.359064, 11.561905, 11.764745, 11.967586,\n", + " 12.170426, 12.373267, 12.576107, 12.778947])
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array([[1.00023952e+01, 7.88527542e+01, 3.04935382e+02, ...,\n", + " 1.93142984e+02, 1.93567415e+02, 1.93210146e+02],\n", + " [1.00047847e+01, 1.47685131e+02, 3.72530736e+02, ...,\n", + " 1.97598835e+02, 1.97719290e+02, 1.97551808e+02],\n", + " [1.00071684e+01, 2.16497136e+02, 4.34561426e+02, ...,\n", + " 1.99371895e+02, 1.99332618e+02, 1.99198835e+02],\n", + " ...,\n", + " [1.06673683e+01, 2.95649066e+04, 7.75262515e+03, ...,\n", + " 2.00805125e+02, 2.00585039e+02, 2.00427047e+02],\n", + " [1.07160601e+01, 3.34939686e+04, 8.06747230e+03, ...,\n", + " 2.00805125e+02, 2.00585039e+02, 2.00427047e+02],\n", + " [1.07622299e+01, 3.78089588e+04, 8.34673758e+03, ...,\n", + " 2.00805125e+02, 2.00585039e+02, 2.00427047e+02]])
array([[ 0. , 0.99959694, 0.9871915 , ..., 0.85778634,\n", + " 0.82204821, 0.86604236],\n", + " [ 0. , 0.99906358, 0.97066658, ..., 0.76497186,\n", + " 0.7397658 , 0.78674034],\n", + " [ 0. , 0.99866393, 0.95809464, ..., 0.70299025,\n", + " 0.6810774 , 0.71946869],\n", + " ...,\n", + " [ 0. , 0.98539009, 0.4540191 , ..., 0.27275862,\n", + " -0.09683656, -0.09489651],\n", + " [ 0. , 0.98461401, 0.4867419 , ..., 0.32901286,\n", + " 0.21002625, 0.13879852],\n", + " [ 0. , 0.98635641, 0.42712011, ..., 0.13873015,\n", + " 0.43195264, 0.49663365]])
array([[ 0. , 294.18943955, 321.41822078, ..., 192.93331805,\n", + " 193.46556826, 192.76671589],\n", + " [ 0. , 432.05714374, 490.9677582 , ..., 194.84772175,\n", + " 195.06799833, 194.40459328],\n", + " [ 0. , 535.36374381, 619.95883018, ..., 196.12616285,\n", + " 196.21094092, 195.79399928],\n", + " ...,\n", + " [ 0. , 3966.56056507, 5791.89215548, ..., 205.00017796,\n", + " 211.36062787, 212.61362392],\n", + " [ 0. , 4167.1712352 , 5456.14848464, ..., 203.8398704 ,\n", + " 205.38454854, 207.78696548],\n", + " [ 0. , 3716.77402137, 6067.88205869, ..., 207.76466695,\n", + " 201.06258553, 200.39635905]])
array([-1.90000000e+02, 2.58493018e+05, 1.02602346e+04, 1.15497914e+04,\n", + " 1.68195629e+04, 1.91789308e+04, 1.97920750e+04, 2.04739243e+04,\n", + " 1.98628174e+04, 2.14217457e+04, 2.30787136e+04, 2.75439244e+04,\n", + " 3.36077443e+04, 3.95384367e+04, 4.21701356e+04, 4.26722045e+04,\n", + " 4.10361202e+04, 3.58616144e+04, 2.83223278e+04, 2.06264656e+04,\n", + " 1.43607517e+04, 9.18098831e+03, 5.57030056e+03, 3.36316630e+03,\n", + " 1.93279536e+03, 1.17701023e+03, 8.05816138e+02, 6.46477276e+02,\n", + " 4.86766556e+02, 3.54100454e+02, 2.81344652e+02, 2.59050811e+02,\n", + " 2.16860258e+02, 1.66873759e+02, 1.40019053e+02, 1.08582782e+02,\n", + " 9.24025916e+01, 7.62421017e+01, 6.95296420e+01, 6.63192247e+01,\n", + " 5.82623495e+01, 5.81042089e+01, 5.24400299e+01, 4.81539029e+01,\n", + " 4.50185732e+01, 4.06202012e+01, 4.05361388e+01, 3.51453041e+01,\n", + " 3.36993461e+01, 3.35304868e+01, 3.04943557e+01, 2.94060037e+01,\n", + " 2.76688057e+01, 2.93246657e+01, 2.71957975e+01, 2.54568387e+01,\n", + " 2.55785786e+01, 2.38141133e+01, 2.40730764e+01, 2.19637827e+01,\n", + " 2.02505220e+01, 2.06261336e+01, 1.94747592e+01, 2.06536633e+01])
array(190)
<xarray.Dataset>\n",
+ "Dimensions: (lagtime: 40, q_y: 256, q_x: 256, q: 128, y: 256, x: 256, frames: 40)\n",
+ "Coordinates:\n",
+ " * lagtime (lagtime) float64 0.01555 0.0311 0.04666 ... 6.843 7.776\n",
+ " framelag (frames) int32 1 2 3 4 5 6 7 ... 265 301 341 387 440 500\n",
+ " * q_y (q_y) float64 -17.26 -17.13 -16.99 ... 16.86 16.99 17.13\n",
+ " * q_x (q_x) float64 -17.26 -17.13 -16.99 ... 16.86 16.99 17.13\n",
+ " * q (q) float64 0.0 0.1349 0.2697 0.4046 ... 16.86 16.99 17.13\n",
+ " * y (y) int32 0 1 2 3 4 5 6 7 ... 249 250 251 252 253 254 255\n",
+ " * x (x) int32 0 1 2 3 4 5 6 7 ... 249 250 251 252 253 254 255\n",
+ "Dimensions without coordinates: frames\n",
+ "Data variables:\n",
+ " ddm_matrix_full (lagtime, q_y, q_x) float64 212.8 231.8 ... 221.1 210.2\n",
+ " ddm_matrix (lagtime, q) float64 0.0 9.101e+03 ... 346.4 336.1\n",
+ " first_image (y, x) float64 1.932e+03 1.991e+03 ... 1.827e+03 1.846e+03\n",
+ " alignment_factor (lagtime, q) float64 nan 6.123e-17 ... -0.001866 -0.004267\n",
+ " avg_image_ft (q) float64 0.0 5.896e+06 7.373e+06 ... 206.7 213.9 203.8\n",
+ " num_pairs_per_dt (lagtime) int32 999 998 997 996 995 ... 659 613 560 500\n",
+ " B float64 425.9\n",
+ " B_std float64 10.4\n",
+ " Amplitude (q) float64 -425.9 1.179e+07 1.475e+07 ... 1.812 -18.3\n",
+ " ISF (lagtime, q) float64 0.0 0.9993 0.9993 ... 44.87 -3.906\n",
+ "Attributes: (12/18)\n",
+ " units: Intensity\n",
+ " lagtime: sec\n",
+ " q: μm$^{-1}$\n",
+ " x: pixels\n",
+ " y: pixels\n",
+ " info: ddm_matrix is the averages of FFT difference images...\n",
+ " ... ...\n",
+ " frame_rate: 64.3\n",
+ " number_lag_times: 40\n",
+ " last_lag_time: 500\n",
+ " overlap_method: 3\n",
+ " binning: True\n",
+ " bin_size: 2array([0.015552, 0.031104, 0.046656, 0.062208, 0.07776 , 0.093313, 0.108865,\n", + " 0.124417, 0.139969, 0.171073, 0.186625, 0.217729, 0.248834, 0.279938,\n", + " 0.311042, 0.357698, 0.419907, 0.466563, 0.528771, 0.606532, 0.684292,\n", + " 0.777605, 0.88647 , 1.010886, 1.150855, 1.306376, 1.493002, 1.695179,\n", + " 1.912908, 2.177294, 2.472784, 2.81493 , 3.18818 , 3.623639, 4.121306,\n", + " 4.681182, 5.303266, 6.018663, 6.842924, 7.77605 ])
array([ 1, 2, 3, 4, 5, 6, 7, 8, 9, 11, 12, 14, 16,\n", + " 18, 20, 23, 27, 30, 34, 39, 44, 50, 57, 65, 74, 84,\n", + " 96, 109, 123, 140, 159, 181, 205, 233, 265, 301, 341, 387, 440,\n", + " 500])
array([-17.261498, -17.126643, -16.991787, ..., 16.856932, 16.991787,\n", + " 17.126643])
array([-17.261498, -17.126643, -16.991787, ..., 16.856932, 16.991787,\n", + " 17.126643])
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array([ 0, 1, 2, ..., 253, 254, 255])
array([ 0, 1, 2, ..., 253, 254, 255])
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<xarray.Dataset>\n",
+ "Dimensions: (lagtime: 40, q_y: 256, q_x: 256, q: 128, y: 256, x: 256, frames: 40)\n",
+ "Coordinates:\n",
+ " * lagtime (lagtime) float64 0.01555 0.0311 0.04666 ... 6.843 7.776\n",
+ " framelag (frames) int32 1 2 3 4 5 6 7 ... 265 301 341 387 440 500\n",
+ " * q_y (q_y) float64 -17.26 -17.13 -16.99 ... 16.86 16.99 17.13\n",
+ " * q_x (q_x) float64 -17.26 -17.13 -16.99 ... 16.86 16.99 17.13\n",
+ " * q (q) float64 0.0 0.1349 0.2697 0.4046 ... 16.86 16.99 17.13\n",
+ " * y (y) int32 0 1 2 3 4 5 6 7 ... 249 250 251 252 253 254 255\n",
+ " * x (x) int32 0 1 2 3 4 5 6 7 ... 249 250 251 252 253 254 255\n",
+ "Dimensions without coordinates: frames\n",
+ "Data variables:\n",
+ " ddm_matrix_full (lagtime, q_y, q_x) float64 212.8 231.8 ... 221.1 210.2\n",
+ " ddm_matrix (lagtime, q) float64 0.0 9.101e+03 ... 346.4 336.1\n",
+ " first_image (y, x) float64 1.932e+03 1.991e+03 ... 1.827e+03 1.846e+03\n",
+ " alignment_factor (lagtime, q) float64 nan 6.123e-17 ... -0.001866 -0.004267\n",
+ " avg_image_ft (q) float64 0.0 5.896e+06 7.373e+06 ... 206.7 213.9 203.8\n",
+ " num_pairs_per_dt (lagtime) int32 999 998 997 996 995 ... 659 613 560 500\n",
+ " B float64 425.9\n",
+ " B_std float64 10.4\n",
+ " Amplitude (q) float64 -425.9 1.179e+07 1.475e+07 ... 1.812 -18.3\n",
+ " ISF (lagtime, q) float64 0.0 0.9993 0.9993 ... 44.87 -3.906\n",
+ "Attributes: (12/18)\n",
+ " units: Intensity\n",
+ " lagtime: sec\n",
+ " q: μm$^{-1}$\n",
+ " x: pixels\n",
+ " y: pixels\n",
+ " info: ddm_matrix is the averages of FFT difference images...\n",
+ " ... ...\n",
+ " frame_rate: 64.3\n",
+ " number_lag_times: 40\n",
+ " last_lag_time: 500\n",
+ " overlap_method: 3\n",
+ " binning: True\n",
+ " bin_size: 2array([0.015552, 0.031104, 0.046656, 0.062208, 0.07776 , 0.093313, 0.108865,\n", + " 0.124417, 0.139969, 0.171073, 0.186625, 0.217729, 0.248834, 0.279938,\n", + " 0.311042, 0.357698, 0.419907, 0.466563, 0.528771, 0.606532, 0.684292,\n", + " 0.777605, 0.88647 , 1.010886, 1.150855, 1.306376, 1.493002, 1.695179,\n", + " 1.912908, 2.177294, 2.472784, 2.81493 , 3.18818 , 3.623639, 4.121306,\n", + " 4.681182, 5.303266, 6.018663, 6.842924, 7.77605 ])
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array([-17.261498, -17.126643, -16.991787, ..., 16.856932, 16.991787,\n", + " 17.126643])
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array([ 0, 1, 2, ..., 253, 254, 255])
array([ 0, 1, 2, ..., 253, 254, 255])
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array(425.90225461)
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<xarray.Dataset>\n",
+ "Dimensions: (lagtime: 40, q_y: 256, q_x: 256, q: 128, y: 256, x: 256, frames: 40)\n",
+ "Coordinates:\n",
+ " * lagtime (lagtime) float64 0.01555 0.0311 0.04666 ... 6.843 7.776\n",
+ " framelag (frames) int32 1 2 3 4 5 6 7 ... 265 301 341 387 440 500\n",
+ " * q_y (q_y) float64 -17.26 -17.13 -16.99 ... 16.86 16.99 17.13\n",
+ " * q_x (q_x) float64 -17.26 -17.13 -16.99 ... 16.86 16.99 17.13\n",
+ " * q (q) float64 0.0 0.1349 0.2697 0.4046 ... 16.86 16.99 17.13\n",
+ " * y (y) int32 0 1 2 3 4 5 6 7 ... 249 250 251 252 253 254 255\n",
+ " * x (x) int32 0 1 2 3 4 5 6 7 ... 249 250 251 252 253 254 255\n",
+ "Dimensions without coordinates: frames\n",
+ "Data variables:\n",
+ " ddm_matrix_full (lagtime, q_y, q_x) float64 212.8 231.8 ... 221.1 210.2\n",
+ " ddm_matrix (lagtime, q) float64 0.0 9.101e+03 ... 346.4 336.1\n",
+ " first_image (y, x) float64 1.932e+03 1.991e+03 ... 1.827e+03 1.846e+03\n",
+ " alignment_factor (lagtime, q) float64 nan 6.123e-17 ... -0.001866 -0.004267\n",
+ " avg_image_ft (q) float64 0.0 5.896e+06 7.373e+06 ... 206.7 213.9 203.8\n",
+ " num_pairs_per_dt (lagtime) int32 999 998 997 996 995 ... 659 613 560 500\n",
+ " B int32 220\n",
+ " B_std float64 10.4\n",
+ " Amplitude (q) float64 -220.0 1.179e+07 1.475e+07 ... 207.7 187.6\n",
+ " ISF (lagtime, q) float64 0.0 0.9992 0.9993 ... 0.3915 0.3811\n",
+ "Attributes: (12/18)\n",
+ " units: Intensity\n",
+ " lagtime: sec\n",
+ " q: μm$^{-1}$\n",
+ " x: pixels\n",
+ " y: pixels\n",
+ " info: ddm_matrix is the averages of FFT difference images...\n",
+ " ... ...\n",
+ " frame_rate: 64.3\n",
+ " number_lag_times: 40\n",
+ " last_lag_time: 500\n",
+ " overlap_method: 3\n",
+ " binning: True\n",
+ " bin_size: 2array([0.015552, 0.031104, 0.046656, 0.062208, 0.07776 , 0.093313, 0.108865,\n", + " 0.124417, 0.139969, 0.171073, 0.186625, 0.217729, 0.248834, 0.279938,\n", + " 0.311042, 0.357698, 0.419907, 0.466563, 0.528771, 0.606532, 0.684292,\n", + " 0.777605, 0.88647 , 1.010886, 1.150855, 1.306376, 1.493002, 1.695179,\n", + " 1.912908, 2.177294, 2.472784, 2.81493 , 3.18818 , 3.623639, 4.121306,\n", + " 4.681182, 5.303266, 6.018663, 6.842924, 7.77605 ])
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array([-17.261498, -17.126643, -16.991787, ..., 16.856932, 16.991787,\n", + " 17.126643])
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array([ 0, 1, 2, ..., 253, 254, 255])
array([ 0, 1, 2, ..., 253, 254, 255])
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array([[0.00000000e+00, 9.10062000e+03, 1.04233383e+04, ...,\n", + " 2.18107495e+02, 2.19346222e+02, 2.18600126e+02],\n", + " [0.00000000e+00, 2.07678585e+04, 2.36634362e+04, ...,\n", + " 2.22431346e+02, 2.23216509e+02, 2.21884581e+02],\n", + " [0.00000000e+00, 3.09175938e+04, 3.53624427e+04, ...,\n", + " 2.26161645e+02, 2.26791511e+02, 2.25265811e+02],\n", + " ...,\n", + " [0.00000000e+00, 1.31432009e+06, 2.03419042e+06, ...,\n", + " 3.38041428e+02, 3.39908195e+02, 3.31354103e+02],\n", + " [0.00000000e+00, 1.43677999e+06, 2.10148084e+06, ...,\n", + " 3.36057224e+02, 3.38221139e+02, 3.28654281e+02],\n", + " [0.00000000e+00, 1.50869608e+06, 1.98966559e+06, ...,\n", + " 3.44812734e+02, 3.46388612e+02, 3.36107868e+02]])
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array([999, 998, 997, 996, 995, 994, 993, 992, 991, 989, 988, 986, 984,\n", + " 982, 980, 977, 973, 970, 966, 961, 956, 950, 943, 935, 926, 916,\n", + " 904, 891, 877, 860, 841, 819, 795, 767, 735, 699, 659, 613, 560,\n", + " 500])
array(220)
array(10.40471811)
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array([[0. , 0.99924682, 0.9993081 , ..., 1.00978579, 1.00314748,\n", + " 1.00746201],\n", + " [0. , 0.9982573 , 0.99841027, ..., 0.98742796, 0.98451477,\n", + " 0.98995427],\n", + " [0. , 0.99739648, 0.99761694, ..., 0.96813927, 0.96730365,\n", + " 0.97193066],\n", + " ...,\n", + " [0. , 0.88854859, 0.8620734 , ..., 0.38962967, 0.42272637,\n", + " 0.4064284 ],\n", + " [0. , 0.87816253, 0.85751033, ..., 0.39988962, 0.43084835,\n", + " 0.42081977],\n", + " [0. , 0.87206318, 0.86509269, ..., 0.3546165 , 0.39152772,\n", + " 0.38108852]])
| \n", + " | Initial guess | \n", + "Minimum | \n", + "Maximum | \n", + "
|---|---|---|---|
| Amplitude | \n", + "100.0 | \n", + "1.000 | \n", + "1000000.0 | \n", + "
| Tau | \n", + "1.0 | \n", + "0.001 | \n", + "10.0 | \n", + "
| Background | \n", + "25000.0 | \n", + "0.000 | \n", + "10000000.0 | \n", + "
| StretchingExp | \n", + "1.0 | \n", + "0.500 | \n", + "1.1 | \n", + "
<xarray.Dataset>\n",
+ "Dimensions: (parameter: 4, q: 128, lagtime: 40)\n",
+ "Coordinates:\n",
+ " * parameter (parameter) <U13 'Amplitude' 'Tau' ... 'StretchingExp'\n",
+ " * q (q) float64 0.0 0.1349 0.2697 0.4046 ... 16.86 16.99 17.13\n",
+ " * lagtime (lagtime) float64 0.01555 0.0311 0.04666 ... 6.843 7.776\n",
+ "Data variables:\n",
+ " parameters (parameter, q) float64 2.015e-06 2.792e+06 ... 0.8 0.8\n",
+ " theory (lagtime, q) float64 3.201e-09 3.698e+04 ... 336.7 327.6\n",
+ " isf_data (lagtime, q) float64 0.0 0.9992 0.9993 ... 0.3915 0.3811\n",
+ " ddm_matrix_data (lagtime, q) float64 0.0 9.101e+03 ... 346.4 336.1\n",
+ " A (q) float64 -220.0 1.179e+07 1.475e+07 ... 207.7 187.6\n",
+ " B int32 220\n",
+ "Attributes: (12/18)\n",
+ " model: DDM Matrix - Single Exponential\n",
+ " data_to_use: DDM Matrix\n",
+ " initial_params_dict: ["{'n': 0, 'value': 10000000.0, 'limits':...\n",
+ " effective_diffusion_coeff: 0.2306739263976093\n",
+ " tau_vs_q_slope: [-1.95948487]\n",
+ " msd_alpha: [1.02067642]\n",
+ " ... ...\n",
+ " DataDirectory: Z:/Gregor L/__Kai Colloids/6-20-22 1xB WT...\n",
+ " FileName: AE_40x_test3_t6_1_MMStack_Pos0.ome.tif\n",
+ " pixel_size: 0.091\n",
+ " frame_rate: 64.3\n",
+ " BackgroundMethod: None\n",
+ " OverlapMethod: 3array(['Amplitude', 'Tau', 'Background', 'StretchingExp'], dtype='<U13')
array([ 0. , 0.134855, 0.269711, 0.404566, 0.539422, 0.674277,\n", + " 0.809133, 0.943988, 1.078844, 1.213699, 1.348555, 1.48341 ,\n", + " 1.618265, 1.753121, 1.887976, 2.022832, 2.157687, 2.292543,\n", + " 2.427398, 2.562254, 2.697109, 2.831965, 2.96682 , 3.101675,\n", + " 3.236531, 3.371386, 3.506242, 3.641097, 3.775953, 3.910808,\n", + " 4.045664, 4.180519, 4.315375, 4.45023 , 4.585085, 4.719941,\n", + " 4.854796, 4.989652, 5.124507, 5.259363, 5.394218, 5.529074,\n", + " 5.663929, 5.798785, 5.93364 , 6.068495, 6.203351, 6.338206,\n", + " 6.473062, 6.607917, 6.742773, 6.877628, 7.012484, 7.147339,\n", + " 7.282195, 7.41705 , 7.551905, 7.686761, 7.821616, 7.956472,\n", + " 8.091327, 8.226183, 8.361038, 8.495894, 8.630749, 8.765605,\n", + " 8.90046 , 9.035315, 9.170171, 9.305026, 9.439882, 9.574737,\n", + " 9.709593, 9.844448, 9.979304, 10.114159, 10.249014, 10.38387 ,\n", + " 10.518725, 10.653581, 10.788436, 10.923292, 11.058147, 11.193003,\n", + " 11.327858, 11.462714, 11.597569, 11.732424, 11.86728 , 12.002135,\n", + " 12.136991, 12.271846, 12.406702, 12.541557, 12.676413, 12.811268,\n", + " 12.946124, 13.080979, 13.215834, 13.35069 , 13.485545, 13.620401,\n", + " 13.755256, 13.890112, 14.024967, 14.159823, 14.294678, 14.429534,\n", + " 14.564389, 14.699244, 14.8341 , 14.968955, 15.103811, 15.238666,\n", + " 15.373522, 15.508377, 15.643233, 15.778088, 15.912944, 16.047799,\n", + " 16.182654, 16.31751 , 16.452365, 16.587221, 16.722076, 16.856932,\n", + " 16.991787, 17.126643])
array([0.015552, 0.031104, 0.046656, 0.062208, 0.07776 , 0.093313, 0.108865,\n", + " 0.124417, 0.139969, 0.171073, 0.186625, 0.217729, 0.248834, 0.279938,\n", + " 0.311042, 0.357698, 0.419907, 0.466563, 0.528771, 0.606532, 0.684292,\n", + " 0.777605, 0.88647 , 1.010886, 1.150855, 1.306376, 1.493002, 1.695179,\n", + " 1.912908, 2.177294, 2.472784, 2.81493 , 3.18818 , 3.623639, 4.121306,\n", + " 4.681182, 5.303266, 6.018663, 6.842924, 7.77605 ])
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array([[0.00000000e+00, 9.10062000e+03, 1.04233383e+04, ...,\n", + " 2.18107495e+02, 2.19346222e+02, 2.18600126e+02],\n", + " [0.00000000e+00, 2.07678585e+04, 2.36634362e+04, ...,\n", + " 2.22431346e+02, 2.23216509e+02, 2.21884581e+02],\n", + " [0.00000000e+00, 3.09175938e+04, 3.53624427e+04, ...,\n", + " 2.26161645e+02, 2.26791511e+02, 2.25265811e+02],\n", + " ...,\n", + " [0.00000000e+00, 1.31432009e+06, 2.03419042e+06, ...,\n", + " 3.38041428e+02, 3.39908195e+02, 3.31354103e+02],\n", + " [0.00000000e+00, 1.43677999e+06, 2.10148084e+06, ...,\n", + " 3.36057224e+02, 3.38221139e+02, 3.28654281e+02],\n", + " [0.00000000e+00, 1.50869608e+06, 1.98966559e+06, ...,\n", + " 3.44812734e+02, 3.46388612e+02, 3.36107868e+02]])
array([-2.20000000e+02, 1.17907897e+07, 1.47467593e+07, 8.51958154e+06,\n", + " 8.42071037e+06, 8.67695307e+06, 6.75533752e+06, 4.62371317e+06,\n", + " 3.86755491e+06, 4.04720515e+06, 2.71925258e+06, 3.05974634e+06,\n", + " 2.73317938e+06, 2.42079942e+06, 2.03057906e+06, 1.71241741e+06,\n", + " 1.43679570e+06, 1.30152612e+06, 1.16801254e+06, 1.01767737e+06,\n", + " 8.53152624e+05, 7.06422630e+05, 6.26850831e+05, 5.39892784e+05,\n", + " 4.51495173e+05, 4.00792883e+05, 3.17370289e+05, 2.88012933e+05,\n", + " 2.48970357e+05, 2.20551204e+05, 1.92440480e+05, 1.68989419e+05,\n", + " 1.48310273e+05, 1.26879003e+05, 1.10162231e+05, 9.79721257e+04,\n", + " 8.70870445e+04, 7.47512933e+04, 6.52771500e+04, 5.69013453e+04,\n", + " 5.05817122e+04, 4.45470902e+04, 3.87807128e+04, 3.31510579e+04,\n", + " 3.00661674e+04, 2.59451687e+04, 2.29557758e+04, 1.97471450e+04,\n", + " 1.74005625e+04, 1.54674537e+04, 1.30425997e+04, 1.14484974e+04,\n", + " 1.01406821e+04, 9.06279017e+03, 8.15250099e+03, 7.38175851e+03,\n", + " 6.72217162e+03, 6.15793910e+03, 5.79590232e+03, 5.36146349e+03,\n", + " 5.06185515e+03, 4.87050823e+03, 4.60640718e+03, 4.42651937e+03,\n", + " 4.24459711e+03, 4.02426132e+03, 3.93075235e+03, 3.72015573e+03,\n", + " 3.58285668e+03, 3.41676946e+03, 3.26037386e+03, 3.12012884e+03,\n", + " 2.93193257e+03, 2.84784664e+03, 2.67101837e+03, 2.56880293e+03,\n", + " 2.41649321e+03, 2.24086963e+03, 2.11938454e+03, 1.91525739e+03,\n", + " 1.80503838e+03, 1.58671841e+03, 1.44633034e+03, 1.31728143e+03,\n", + " 1.17384312e+03, 1.04133380e+03, 9.32399023e+02, 8.40443517e+02,\n", + " 7.62241045e+02, 6.50990039e+02, 5.95318059e+02, 5.60026119e+02,\n", + " 5.05373957e+02, 4.64387649e+02, 4.28458469e+02, 3.99618918e+02,\n", + " 3.76960797e+02, 3.56011827e+02, 3.15308538e+02, 3.17398720e+02,\n", + " 3.03023826e+02, 3.03411902e+02, 2.72058428e+02, 2.70247925e+02,\n", + " 2.78158464e+02, 2.51783864e+02, 2.55096141e+02, 2.49134973e+02,\n", + " 2.40043738e+02, 2.53683958e+02, 2.31035255e+02, 2.44126669e+02,\n", + " 2.30366641e+02, 2.23964526e+02, 2.21178018e+02, 2.14794542e+02,\n", + " 2.14580319e+02, 2.18157509e+02, 2.17989614e+02, 2.11849015e+02,\n", + " 1.98044178e+02, 2.19836148e+02, 2.00768838e+02, 1.95173294e+02,\n", + " 2.05720234e+02, 1.93393129e+02, 2.07714658e+02, 1.87600120e+02])
array(220)
<xarray.Dataset>\n",
+ "Dimensions: (parameter: 4, q: 128, lagtime: 40)\n",
+ "Coordinates:\n",
+ " * parameter (parameter) <U13 'Amplitude' 'Tau' ... 'StretchingExp'\n",
+ " * q (q) float64 0.0 0.06761 0.1352 0.2028 ... 8.452 8.519 8.587\n",
+ " * lagtime (lagtime) float64 0.01555 0.0311 0.04666 ... 6.843 7.776\n",
+ "Data variables:\n",
+ " parameters (parameter, q) float64 2.015e-06 2.989e+06 ... 0.8 0.8\n",
+ " theory (lagtime, q) float64 3.2e-09 3.548e+04 ... 293.9 287.5\n",
+ " isf_data (lagtime, q) float64 0.0 0.9992 0.9993 ... 0.3915 0.3811\n",
+ " ddm_matrix_data (lagtime, q) float64 0.0 9.101e+03 ... 346.4 336.1\n",
+ " A (q) float64 -220.0 1.179e+07 1.475e+07 ... 207.7 187.6\n",
+ " B int32 220\n",
+ "Attributes: (12/18)\n",
+ " model: DDM Matrix - Single Exponential\n",
+ " data_to_use: DDM Matrix\n",
+ " initial_params_dict: ["{'n': 0, 'value': 10000000.0, 'limits':...\n",
+ " effective_diffusion_coeff: 0.9005730648424813\n",
+ " tau_vs_q_slope: [-2.03730013]\n",
+ " msd_alpha: [0.98169139]\n",
+ " ... ...\n",
+ " DataDirectory: Z:/Gregor L/__Kai Colloids/6-20-22 1xB WT...\n",
+ " FileName: AE_40x_test3_t6_1_MMStack_Pos0.ome.tif\n",
+ " pixel_size: 0.1815\n",
+ " frame_rate: 64.3\n",
+ " BackgroundMethod: None\n",
+ " OverlapMethod: 3array(['Amplitude', 'Tau', 'Background', 'StretchingExp'], dtype='<U13')
array([0. , 0.067613, 0.135227, 0.20284 , 0.270454, 0.338067, 0.405681,\n", + " 0.473294, 0.540908, 0.608521, 0.676135, 0.743748, 0.811362, 0.878975,\n", + " 0.946589, 1.014202, 1.081816, 1.149429, 1.217043, 1.284656, 1.35227 ,\n", + " 1.419883, 1.487497, 1.55511 , 1.622723, 1.690337, 1.75795 , 1.825564,\n", + " 1.893177, 1.960791, 2.028404, 2.096018, 2.163631, 2.231245, 2.298858,\n", + " 2.366472, 2.434085, 2.501699, 2.569312, 2.636926, 2.704539, 2.772153,\n", + " 2.839766, 2.90738 , 2.974993, 3.042607, 3.11022 , 3.177833, 3.245447,\n", + " 3.31306 , 3.380674, 3.448287, 3.515901, 3.583514, 3.651128, 3.718741,\n", + " 3.786355, 3.853968, 3.921582, 3.989195, 4.056809, 4.124422, 4.192036,\n", + " 4.259649, 4.327263, 4.394876, 4.46249 , 4.530103, 4.597717, 4.66533 ,\n", + " 4.732943, 4.800557, 4.86817 , 4.935784, 5.003397, 5.071011, 5.138624,\n", + " 5.206238, 5.273851, 5.341465, 5.409078, 5.476692, 5.544305, 5.611919,\n", + " 5.679532, 5.747146, 5.814759, 5.882373, 5.949986, 6.0176 , 6.085213,\n", + " 6.152827, 6.22044 , 6.288053, 6.355667, 6.42328 , 6.490894, 6.558507,\n", + " 6.626121, 6.693734, 6.761348, 6.828961, 6.896575, 6.964188, 7.031802,\n", + " 7.099415, 7.167029, 7.234642, 7.302256, 7.369869, 7.437483, 7.505096,\n", + " 7.57271 , 7.640323, 7.707937, 7.77555 , 7.843163, 7.910777, 7.97839 ,\n", + " 8.046004, 8.113617, 8.181231, 8.248844, 8.316458, 8.384071, 8.451685,\n", + " 8.519298, 8.586912])
array([0.015552, 0.031104, 0.046656, 0.062208, 0.07776 , 0.093313, 0.108865,\n", + " 0.124417, 0.139969, 0.171073, 0.186625, 0.217729, 0.248834, 0.279938,\n", + " 0.311042, 0.357698, 0.419907, 0.466563, 0.528771, 0.606532, 0.684292,\n", + " 0.777605, 0.88647 , 1.010886, 1.150855, 1.306376, 1.493002, 1.695179,\n", + " 1.912908, 2.177294, 2.472784, 2.81493 , 3.18818 , 3.623639, 4.121306,\n", + " 4.681182, 5.303266, 6.018663, 6.842924, 7.77605 ])
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array(220)
<xarray.Dataset>\n",
+ "Dimensions: (parameter: 4, q: 128, lagtime: 40)\n",
+ "Coordinates:\n",
+ " * parameter (parameter) <U13 'Amplitude' 'Tau' ... 'StretchingExp'\n",
+ " * q (q) float64 0.0 0.06761 0.1352 0.2028 ... 8.452 8.519 8.587\n",
+ " * lagtime (lagtime) float64 0.01555 0.0311 0.04666 ... 6.843 7.776\n",
+ "Data variables:\n",
+ " parameters (parameter, q) float64 2.015e-06 2.989e+06 ... 0.8 0.8\n",
+ " theory (lagtime, q) float64 3.2e-09 3.548e+04 ... 293.9 287.5\n",
+ " isf_data (lagtime, q) float64 0.0 0.9992 0.9993 ... 0.3915 0.3811\n",
+ " ddm_matrix_data (lagtime, q) float64 0.0 9.101e+03 ... 346.4 336.1\n",
+ " A (q) float64 -220.0 1.179e+07 1.475e+07 ... 207.7 187.6\n",
+ " B int32 220\n",
+ "Attributes: (12/18)\n",
+ " model: DDM Matrix - Single Exponential\n",
+ " data_to_use: DDM Matrix\n",
+ " initial_params_dict: ["{'n': 0, 'value': 10000000.0, 'limits':...\n",
+ " effective_diffusion_coeff: 0.9005730648424813\n",
+ " tau_vs_q_slope: [-2.03730013]\n",
+ " msd_alpha: [0.98169139]\n",
+ " ... ...\n",
+ " DataDirectory: Z:/Gregor L/__Kai Colloids/6-20-22 1xB WT...\n",
+ " FileName: AE_40x_test3_t6_1_MMStack_Pos0.ome.tif\n",
+ " pixel_size: 0.1815\n",
+ " frame_rate: 64.3\n",
+ " BackgroundMethod: None\n",
+ " OverlapMethod: 3array(['Amplitude', 'Tau', 'Background', 'StretchingExp'], dtype='<U13')
array([0. , 0.067613, 0.135227, 0.20284 , 0.270454, 0.338067, 0.405681,\n", + " 0.473294, 0.540908, 0.608521, 0.676135, 0.743748, 0.811362, 0.878975,\n", + " 0.946589, 1.014202, 1.081816, 1.149429, 1.217043, 1.284656, 1.35227 ,\n", + " 1.419883, 1.487497, 1.55511 , 1.622723, 1.690337, 1.75795 , 1.825564,\n", + " 1.893177, 1.960791, 2.028404, 2.096018, 2.163631, 2.231245, 2.298858,\n", + " 2.366472, 2.434085, 2.501699, 2.569312, 2.636926, 2.704539, 2.772153,\n", + " 2.839766, 2.90738 , 2.974993, 3.042607, 3.11022 , 3.177833, 3.245447,\n", + " 3.31306 , 3.380674, 3.448287, 3.515901, 3.583514, 3.651128, 3.718741,\n", + " 3.786355, 3.853968, 3.921582, 3.989195, 4.056809, 4.124422, 4.192036,\n", + " 4.259649, 4.327263, 4.394876, 4.46249 , 4.530103, 4.597717, 4.66533 ,\n", + " 4.732943, 4.800557, 4.86817 , 4.935784, 5.003397, 5.071011, 5.138624,\n", + " 5.206238, 5.273851, 5.341465, 5.409078, 5.476692, 5.544305, 5.611919,\n", + " 5.679532, 5.747146, 5.814759, 5.882373, 5.949986, 6.0176 , 6.085213,\n", + " 6.152827, 6.22044 , 6.288053, 6.355667, 6.42328 , 6.490894, 6.558507,\n", + " 6.626121, 6.693734, 6.761348, 6.828961, 6.896575, 6.964188, 7.031802,\n", + " 7.099415, 7.167029, 7.234642, 7.302256, 7.369869, 7.437483, 7.505096,\n", + " 7.57271 , 7.640323, 7.707937, 7.77555 , 7.843163, 7.910777, 7.97839 ,\n", + " 8.046004, 8.113617, 8.181231, 8.248844, 8.316458, 8.384071, 8.451685,\n", + " 8.519298, 8.586912])
array([0.015552, 0.031104, 0.046656, 0.062208, 0.07776 , 0.093313, 0.108865,\n", + " 0.124417, 0.139969, 0.171073, 0.186625, 0.217729, 0.248834, 0.279938,\n", + " 0.311042, 0.357698, 0.419907, 0.466563, 0.528771, 0.606532, 0.684292,\n", + " 0.777605, 0.88647 , 1.010886, 1.150855, 1.306376, 1.493002, 1.695179,\n", + " 1.912908, 2.177294, 2.472784, 2.81493 , 3.18818 , 3.623639, 4.121306,\n", + " 4.681182, 5.303266, 6.018663, 6.842924, 7.77605 ])
array([[2.01477974e-06, 2.98926005e+06, 3.88180712e+06, 2.87373794e+06,\n", + " 8.54543170e+06, 8.35378888e+06, 5.46797899e+06, 4.46215302e+06,\n", + " 3.27563302e+06, 3.72338451e+06, 2.33616432e+06, 2.51334767e+06,\n", + " 2.28080031e+06, 1.92743537e+06, 1.67643930e+06, 1.39249654e+06,\n", + " 1.23162701e+06, 1.04955752e+06, 9.30000261e+05, 7.94972800e+05,\n", + " 6.70229322e+05, 5.73590840e+05, 5.25289557e+05, 4.46191868e+05,\n", + " 3.91937761e+05, 3.41639802e+05, 2.83831581e+05, 2.53322713e+05,\n", + " 2.25038350e+05, 1.94004971e+05, 1.72311284e+05, 1.50789386e+05,\n", + " 1.34622992e+05, 1.17743717e+05, 1.02938666e+05, 9.11228648e+04,\n", + " 8.03811241e+04, 6.95318162e+04, 6.18177348e+04, 5.37334676e+04,\n", + " 4.74384168e+04, 4.18702277e+04, 3.60761217e+04, 3.14085897e+04,\n", + " 2.82074742e+04, 2.45628477e+04, 2.16495356e+04, 1.85442495e+04,\n", + " 1.63796726e+04, 1.42695047e+04, 1.22968693e+04, 1.07546662e+04,\n", + " 9.44571578e+03, 8.41054825e+03, 7.70181002e+03, 6.83254602e+03,\n", + " 6.24358914e+03, 5.70876097e+03, 5.35231059e+03, 4.90052919e+03,\n", + " 4.59036325e+03, 4.30957489e+03, 4.08800354e+03, 3.92206136e+03,\n", + " 3.67628527e+03, 3.54781853e+03, 3.40656123e+03, 3.23113810e+03,\n", + " 3.10396375e+03, 2.93145752e+03, 2.79827652e+03, 2.62691276e+03,\n", + " 2.47429092e+03, 2.34562829e+03, 2.19762167e+03, 2.04778446e+03,\n", + " 1.90371853e+03, 1.74551972e+03, 1.55984446e+03, 1.41893605e+03,\n", + "...\n", + " 8.22003332e-01, 8.00000000e-01, 8.09020387e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01,\n", + " 8.00000000e-01, 8.00000000e-01, 8.00000000e-01, 8.00000000e-01]])
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array(220)
<xarray.Dataset>\n",
+ "Dimensions: (lagtime: 40, q_y: 128, q_x: 128, q: 64, y: 128, x: 128, frames: 40)\n",
+ "Coordinates:\n",
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+ " framelag (frames) int64 1 2 3 4 5 6 7 ... 308 352 402 459 525 600\n",
+ " * q_y (q_y) float64 -1.939 -1.909 -1.879 ... 1.848 1.879 1.909\n",
+ " * q_x (q_x) float64 -1.939 -1.909 -1.879 ... 1.848 1.879 1.909\n",
+ " * q (q) float64 0.0 0.0303 0.0606 0.0909 ... 1.848 1.879 1.909\n",
+ " * y (y) int64 0 1 2 3 4 5 6 7 ... 121 122 123 124 125 126 127\n",
+ " * x (x) int64 0 1 2 3 4 5 6 7 ... 121 122 123 124 125 126 127\n",
+ "Dimensions without coordinates: frames\n",
+ "Data variables:\n",
+ " ddm_matrix_full (lagtime, q_y, q_x) float64 4.168e+03 ... 5.971e+03\n",
+ " ddm_matrix (lagtime, q) float64 0.0 2.989e+03 ... 8.758e+03 9.066e+03\n",
+ " first_image (y, x) float64 403.8 406.5 368.2 ... 398.2 456.8 297.2\n",
+ " alignment_factor (lagtime, q) float64 nan 6.123e-17 ... 0.08874 0.05498\n",
+ " avg_image_ft (q) float64 0.0 2.687e+05 3.972e+05 ... 3.757e+03 3.73e+03\n",
+ " num_pairs_per_dt (lagtime) int64 998 997 996 498 497 497 ... 7 6 5 4 3 2\n",
+ " B float64 7.676e+03\n",
+ " B_std float64 211.0\n",
+ " Amplitude (q) float64 -7.676e+03 5.298e+05 ... -161.6 -215.0\n",
+ " ISF (lagtime, q) float64 0.0 1.009 1.006 ... 11.46 7.696 7.467\n",
+ "Attributes: (12/25)\n",
+ " units: Intensity\n",
+ " lagtime: sec\n",
+ " q: μm$^{-1}$\n",
+ " x: pixels\n",
+ " y: pixels\n",
+ " info: ddm_matrix is the averages of FFT difference ima...\n",
+ " ... ...\n",
+ " split_into_4_rois: False\n",
+ " use_windowing_function: False\n",
+ " binning: True\n",
+ " bin_size: 2\n",
+ " central_angle: None\n",
+ " angle_range: None<xarray.Dataset>\n",
+ "Dimensions: (lagtime: 40, q_y: 128, q_x: 128, q: 64, y: 128, x: 128, frames: 40)\n",
+ "Coordinates:\n",
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+ " framelag (frames) int32 1 2 3 4 5 6 7 ... 308 352 402 459 525 599\n",
+ " * q_y (q_y) float64 -12.98 -12.78 -12.58 ... 12.37 12.58 12.78\n",
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+ " * y (y) int32 0 1 2 3 4 5 6 7 ... 121 122 123 124 125 126 127\n",
+ " * x (x) int32 0 1 2 3 4 5 6 7 ... 121 122 123 124 125 126 127\n",
+ "Dimensions without coordinates: frames\n",
+ "Data variables:\n",
+ " ddm_matrix_full (lagtime, q_y, q_x) float64 194.5 183.5 ... 192.0 196.8\n",
+ " ddm_matrix (lagtime, q) float64 0.0 294.2 321.4 ... 207.8 201.1 200.4\n",
+ " first_image (y, x) float64 128.0 149.0 173.0 ... 175.0 229.0 215.0\n",
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+ " num_pairs_per_dt (lagtime) int32 2999 2998 2997 1498 1498 ... 20 17 15 13\n",
+ " B float64 211.2\n",
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+ " Amplitude (q) float64 -211.2 2.585e+05 1.024e+04 ... -1.699 -0.52\n",
+ " ISF (lagtime, q) float64 0.0 0.9997 0.9892 ... -4.952 -19.73\n",
+ "Attributes: (12/24)\n",
+ " units: Intensity\n",
+ " lagtime: sec\n",
+ " q: μm$^{-1}$\n",
+ " x: pixels\n",
+ " y: pixels\n",
+ " info: ddm_matrix is the averages of FFT difference ima...\n",
+ " ... ...\n",
+ " split_into_4_rois: no\n",
+ " use_windowing_function: no\n",
+ " binning: no\n",
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array(211.17365621)
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<xarray.Dataset>\n",
+ "Dimensions: (lagtime: 40, q_y: 128, q_x: 128, q: 64, y: 128, x: 128, frames: 40)\n",
+ "Coordinates:\n",
+ " * lagtime (lagtime) float64 0.02398 0.04796 0.07194 ... 12.59 14.36\n",
+ " framelag (frames) int32 1 2 3 4 5 6 7 ... 308 352 402 459 525 599\n",
+ " * q_y (q_y) float64 -12.98 -12.78 -12.58 ... 12.37 12.58 12.78\n",
+ " * q_x (q_x) float64 -12.98 -12.78 -12.58 ... 12.37 12.58 12.78\n",
+ " * q (q) float64 0.0 0.2028 0.4057 0.6085 ... 12.37 12.58 12.78\n",
+ " * y (y) int32 0 1 2 3 4 5 6 7 ... 121 122 123 124 125 126 127\n",
+ " * x (x) int32 0 1 2 3 4 5 6 7 ... 121 122 123 124 125 126 127\n",
+ "Dimensions without coordinates: frames\n",
+ "Data variables:\n",
+ " ddm_matrix_full (lagtime, q_y, q_x) float64 194.5 183.5 ... 192.0 196.8\n",
+ " ddm_matrix (lagtime, q) float64 0.0 294.2 321.4 ... 207.8 201.1 200.4\n",
+ " first_image (y, x) float64 128.0 149.0 173.0 ... 175.0 229.0 215.0\n",
+ " avg_image_ft (q) float64 0.0 1.293e+05 5.225e+03 ... 105.3 104.7 105.3\n",
+ " num_pairs_per_dt (lagtime) int32 2999 2998 2997 1498 1498 ... 20 17 15 13\n",
+ " B int32 190\n",
+ " B_std float64 1.491\n",
+ " Amplitude (q) float64 -190.0 2.585e+05 1.026e+04 ... 19.47 20.65\n",
+ " ISF (lagtime, q) float64 0.0 0.9996 0.9872 ... 0.432 0.4966\n",
+ "Attributes: (12/24)\n",
+ " units: Intensity\n",
+ " lagtime: sec\n",
+ " q: μm$^{-1}$\n",
+ " x: pixels\n",
+ " y: pixels\n",
+ " info: ddm_matrix is the averages of FFT difference ima...\n",
+ " ... ...\n",
+ " split_into_4_rois: no\n",
+ " use_windowing_function: no\n",
+ " binning: no\n",
+ " bin_size: 2\n",
+ " central_angle: no\n",
+ " angle_range: noarray([ 0.023981, 0.047962, 0.071942, 0.095923, 0.119904, 0.143885,\n", + " 0.167866, 0.191847, 0.215827, 0.263789, 0.28777 , 0.335731,\n", + " 0.383693, 0.431655, 0.503597, 0.57554 , 0.647482, 0.743405,\n", + " 0.863309, 0.983213, 1.127098, 1.294964, 1.486811, 1.702638,\n", + " 1.942446, 2.206235, 2.541966, 2.901679, 3.309353, 3.788969,\n", + " 4.316547, 4.940048, 5.659472, 6.450839, 7.386091, 8.441247,\n", + " 9.640288, 11.007194, 12.589928, 14.364508])
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array([[128., 149., 173., ..., 178., 224., 255.],\n", + " [164., 163., 166., ..., 182., 197., 255.],\n", + " [208., 182., 175., ..., 178., 210., 255.],\n", + " ...,\n", + " [147., 162., 162., ..., 182., 196., 165.],\n", + " [201., 214., 234., ..., 189., 174., 178.],\n", + " [255., 255., 255., ..., 175., 229., 215.]])
array([0.00000000e+00, 1.29341509e+05, 5.22511731e+03, 5.86989569e+03,\n", + " 8.50478146e+03, 9.68446541e+03, 9.99103750e+03, 1.03319622e+04,\n", + " 1.00264087e+04, 1.08058729e+04, 1.16343568e+04, 1.38669622e+04,\n", + " 1.68988722e+04, 1.98642184e+04, 2.11800678e+04, 2.14311022e+04,\n", + " 2.06130601e+04, 1.80258072e+04, 1.42561639e+04, 1.04082328e+04,\n", + " 7.27537584e+03, 4.68549415e+03, 2.88015028e+03, 1.77658315e+03,\n", + " 1.06139768e+03, 6.83505113e+02, 4.97908069e+02, 4.18238638e+02,\n", + " 3.38383278e+02, 2.72050227e+02, 2.35672326e+02, 2.24525405e+02,\n", + " 2.03430129e+02, 1.78436880e+02, 1.65009527e+02, 1.49291391e+02,\n", + " 1.41201296e+02, 1.33121051e+02, 1.29764821e+02, 1.28159612e+02,\n", + " 1.24131175e+02, 1.24052104e+02, 1.21220015e+02, 1.19076951e+02,\n", + " 1.17509287e+02, 1.15310101e+02, 1.15268069e+02, 1.12572652e+02,\n", + " 1.11849673e+02, 1.11765243e+02, 1.10247178e+02, 1.09703002e+02,\n", + " 1.08834403e+02, 1.09662333e+02, 1.08597899e+02, 1.07728419e+02,\n", + " 1.07789289e+02, 1.06907057e+02, 1.07036538e+02, 1.05981891e+02,\n", + " 1.05125261e+02, 1.05313067e+02, 1.04737380e+02, 1.05326832e+02])
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array(190)
array(1.49105881)
array([-1.90000000e+02, 2.58493018e+05, 1.02602346e+04, 1.15497914e+04,\n", + " 1.68195629e+04, 1.91789308e+04, 1.97920750e+04, 2.04739243e+04,\n", + " 1.98628174e+04, 2.14217457e+04, 2.30787136e+04, 2.75439244e+04,\n", + " 3.36077443e+04, 3.95384367e+04, 4.21701356e+04, 4.26722045e+04,\n", + " 4.10361202e+04, 3.58616144e+04, 2.83223278e+04, 2.06264656e+04,\n", + " 1.43607517e+04, 9.18098831e+03, 5.57030056e+03, 3.36316630e+03,\n", + " 1.93279536e+03, 1.17701023e+03, 8.05816138e+02, 6.46477276e+02,\n", + " 4.86766556e+02, 3.54100454e+02, 2.81344652e+02, 2.59050811e+02,\n", + " 2.16860258e+02, 1.66873759e+02, 1.40019053e+02, 1.08582782e+02,\n", + " 9.24025916e+01, 7.62421017e+01, 6.95296420e+01, 6.63192247e+01,\n", + " 5.82623495e+01, 5.81042089e+01, 5.24400299e+01, 4.81539029e+01,\n", + " 4.50185732e+01, 4.06202012e+01, 4.05361388e+01, 3.51453041e+01,\n", + " 3.36993461e+01, 3.35304868e+01, 3.04943557e+01, 2.94060037e+01,\n", + " 2.76688057e+01, 2.93246657e+01, 2.71957975e+01, 2.54568387e+01,\n", + " 2.55785786e+01, 2.38141133e+01, 2.40730764e+01, 2.19637827e+01,\n", + " 2.02505220e+01, 2.06261336e+01, 1.94747592e+01, 2.06536633e+01])
array([[ 0. , 0.99959694, 0.9871915 , ..., 0.85778634,\n", + " 0.82204821, 0.86604236],\n", + " [ 0. , 0.99906358, 0.97066658, ..., 0.76497186,\n", + " 0.7397658 , 0.78674034],\n", + " [ 0. , 0.99866393, 0.95809464, ..., 0.70299025,\n", + " 0.6810774 , 0.71946869],\n", + " ...,\n", + " [ 0. , 0.98539009, 0.4540191 , ..., 0.27275862,\n", + " -0.09683656, -0.09489651],\n", + " [ 0. , 0.98461401, 0.4867419 , ..., 0.32901286,\n", + " 0.21002625, 0.13879852],\n", + " [ 0. , 0.98635641, 0.42712011, ..., 0.13873015,\n", + " 0.43195264, 0.49663365]])
| \n", + " | Initial guess | \n", + "Minimum | \n", + "Maximum | \n", + "
|---|---|---|---|
| Amplitude | \n", + "100.0 | \n", + "1.000 | \n", + "1000000.0 | \n", + "
| Tau | \n", + "1.0 | \n", + "0.001 | \n", + "10.0 | \n", + "
| Background | \n", + "25000.0 | \n", + "0.000 | \n", + "10000000.0 | \n", + "
| StretchingExp | \n", + "1.0 | \n", + "0.500 | \n", + "1.1 | \n", + "
<xarray.Dataset>\n",
+ "Dimensions: (parameter: 4, q: 64, lagtime: 40)\n",
+ "Coordinates:\n",
+ " * parameter (parameter) <U13 'Amplitude' 'Tau' ... 'StretchingExp'\n",
+ " * q (q) float64 0.0 0.2028 0.4057 0.6085 ... 12.37 12.58 12.78\n",
+ " * lagtime (lagtime) float64 0.02398 0.04796 0.07194 ... 12.59 14.36\n",
+ "Data variables:\n",
+ " parameters (parameter, q) float64 1.0 2.326e+05 ... 0.705 0.7446\n",
+ " theory (lagtime, q) float64 10.0 315.0 338.5 ... 206.7 206.8 206.9\n",
+ " isf_data (lagtime, q) float64 0.0 0.9996 0.9872 ... 0.432 0.4966\n",
+ " ddm_matrix_data (lagtime, q) float64 0.0 294.2 321.4 ... 207.8 201.1 200.4\n",
+ " A (q) float64 -190.0 2.585e+05 1.026e+04 ... 19.47 20.65\n",
+ " B int32 190\n",
+ "Attributes: (12/18)\n",
+ " model: DDM Matrix - Single Exponential\n",
+ " data_to_use: DDM Matrix\n",
+ " initial_params_dict: ["{'n': 0, 'value': 100.0, 'limits': [1.0...\n",
+ " effective_diffusion_coeff: 0.6168642315520588\n",
+ " tau_vs_q_slope: [-1.98005917]\n",
+ " msd_alpha: [1.01007082]\n",
+ " ... ...\n",
+ " DataDirectory: C:/Users/rmcgorty/Documents/GitHub/PyDDM/...\n",
+ " FileName: images_nobin_40x_128x128_8bit.tif\n",
+ " pixel_size: 0.242\n",
+ " frame_rate: 41.7\n",
+ " BackgroundMethod: None\n",
+ " OverlapMethod: 2array(['Amplitude', 'Tau', 'Background', 'StretchingExp'], dtype='<U13')
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array([ 0.023981, 0.047962, 0.071942, 0.095923, 0.119904, 0.143885,\n", + " 0.167866, 0.191847, 0.215827, 0.263789, 0.28777 , 0.335731,\n", + " 0.383693, 0.431655, 0.503597, 0.57554 , 0.647482, 0.743405,\n", + " 0.863309, 0.983213, 1.127098, 1.294964, 1.486811, 1.702638,\n", + " 1.942446, 2.206235, 2.541966, 2.901679, 3.309353, 3.788969,\n", + " 4.316547, 4.940048, 5.659472, 6.450839, 7.386091, 8.441247,\n", + " 9.640288, 11.007194, 12.589928, 14.364508])
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array([[ 0. , 0.99959694, 0.9871915 , ..., 0.85778634,\n", + " 0.82204821, 0.86604236],\n", + " [ 0. , 0.99906358, 0.97066658, ..., 0.76497186,\n", + " 0.7397658 , 0.78674034],\n", + " [ 0. , 0.99866393, 0.95809464, ..., 0.70299025,\n", + " 0.6810774 , 0.71946869],\n", + " ...,\n", + " [ 0. , 0.98539009, 0.4540191 , ..., 0.27275862,\n", + " -0.09683656, -0.09489651],\n", + " [ 0. , 0.98461401, 0.4867419 , ..., 0.32901286,\n", + " 0.21002625, 0.13879852],\n", + " [ 0. , 0.98635641, 0.42712011, ..., 0.13873015,\n", + " 0.43195264, 0.49663365]])
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array([-1.90000000e+02, 2.58493018e+05, 1.02602346e+04, 1.15497914e+04,\n", + " 1.68195629e+04, 1.91789308e+04, 1.97920750e+04, 2.04739243e+04,\n", + " 1.98628174e+04, 2.14217457e+04, 2.30787136e+04, 2.75439244e+04,\n", + " 3.36077443e+04, 3.95384367e+04, 4.21701356e+04, 4.26722045e+04,\n", + " 4.10361202e+04, 3.58616144e+04, 2.83223278e+04, 2.06264656e+04,\n", + " 1.43607517e+04, 9.18098831e+03, 5.57030056e+03, 3.36316630e+03,\n", + " 1.93279536e+03, 1.17701023e+03, 8.05816138e+02, 6.46477276e+02,\n", + " 4.86766556e+02, 3.54100454e+02, 2.81344652e+02, 2.59050811e+02,\n", + " 2.16860258e+02, 1.66873759e+02, 1.40019053e+02, 1.08582782e+02,\n", + " 9.24025916e+01, 7.62421017e+01, 6.95296420e+01, 6.63192247e+01,\n", + " 5.82623495e+01, 5.81042089e+01, 5.24400299e+01, 4.81539029e+01,\n", + " 4.50185732e+01, 4.06202012e+01, 4.05361388e+01, 3.51453041e+01,\n", + " 3.36993461e+01, 3.35304868e+01, 3.04943557e+01, 2.94060037e+01,\n", + " 2.76688057e+01, 2.93246657e+01, 2.71957975e+01, 2.54568387e+01,\n", + " 2.55785786e+01, 2.38141133e+01, 2.40730764e+01, 2.19637827e+01,\n", + " 2.02505220e+01, 2.06261336e+01, 1.94747592e+01, 2.06536633e+01])
array(190)
<xarray.Dataset>\n",
+ "Dimensions: (parameter: 4, q: 64, lagtime: 40)\n",
+ "Coordinates:\n",
+ " * parameter (parameter) <U13 'Amplitude' 'Tau' ... 'StretchingExp'\n",
+ " * q (q) float64 0.0 0.2028 0.4057 0.6085 ... 12.37 12.58 12.78\n",
+ " * lagtime (lagtime) float64 0.02398 0.04796 0.07194 ... 12.59 14.36\n",
+ "Data variables:\n",
+ " parameters (parameter, q) float64 1.0 2.326e+05 9.894e+03 ... 0.5 0.5\n",
+ " theory (lagtime, q) float64 10.0 152.4 361.6 ... 202.0 201.7 201.6\n",
+ " isf_data (lagtime, q) float64 0.0 0.9996 0.9872 ... 0.432 0.4966\n",
+ " ddm_matrix_data (lagtime, q) float64 0.0 294.2 321.4 ... 207.8 201.1 200.4\n",
+ " A (q) float64 -190.0 2.585e+05 1.026e+04 ... 19.47 20.65\n",
+ " B int32 190\n",
+ "Attributes: (12/18)\n",
+ " model: DDM Matrix - Single Exponential\n",
+ " data_to_use: DDM Matrix\n",
+ " initial_params_dict: ["{'n': 0, 'value': 100.0, 'limits': [1.0...\n",
+ " effective_diffusion_coeff: 0.6584064996820138\n",
+ " tau_vs_q_slope: [-1.89886818]\n",
+ " msd_alpha: [1.053259]\n",
+ " ... ...\n",
+ " DataDirectory: C:/Users/rmcgorty/Documents/GitHub/PyDDM/...\n",
+ " FileName: images_nobin_40x_128x128_8bit.tif\n",
+ " pixel_size: 0.242\n",
+ " frame_rate: 41.7\n",
+ " BackgroundMethod: None\n",
+ " OverlapMethod: 2array(['Amplitude', 'Tau', 'Background', 'StretchingExp'], dtype='<U13')
array([ 0. , 0.20284 , 0.405681, 0.608521, 0.811362, 1.014202,\n", + " 1.217043, 1.419883, 1.622723, 1.825564, 2.028404, 2.231245,\n", + " 2.434085, 2.636926, 2.839766, 3.042607, 3.245447, 3.448287,\n", + " 3.651128, 3.853968, 4.056809, 4.259649, 4.46249 , 4.66533 ,\n", + " 4.86817 , 5.071011, 5.273851, 5.476692, 5.679532, 5.882373,\n", + " 6.085213, 6.288053, 6.490894, 6.693734, 6.896575, 7.099415,\n", + " 7.302256, 7.505096, 7.707937, 7.910777, 8.113617, 8.316458,\n", + " 8.519298, 8.722139, 8.924979, 9.12782 , 9.33066 , 9.5335 ,\n", + " 9.736341, 9.939181, 10.142022, 10.344862, 10.547703, 10.750543,\n", + " 10.953383, 11.156224, 11.359064, 11.561905, 11.764745, 11.967586,\n", + " 12.170426, 12.373267, 12.576107, 12.778947])
array([ 0.023981, 0.047962, 0.071942, 0.095923, 0.119904, 0.143885,\n", + " 0.167866, 0.191847, 0.215827, 0.263789, 0.28777 , 0.335731,\n", + " 0.383693, 0.431655, 0.503597, 0.57554 , 0.647482, 0.743405,\n", + " 0.863309, 0.983213, 1.127098, 1.294964, 1.486811, 1.702638,\n", + " 1.942446, 2.206235, 2.541966, 2.901679, 3.309353, 3.788969,\n", + " 4.316547, 4.940048, 5.659472, 6.450839, 7.386091, 8.441247,\n", + " 9.640288, 11.007194, 12.589928, 14.364508])
array([[1.00000000e+00, 2.32643716e+05, 9.89373199e+03, 1.04425914e+04,\n", + " 1.65958403e+04, 1.87741626e+04, 2.01262063e+04, 2.02699350e+04,\n", + " 1.93938141e+04, 2.14281346e+04, 2.33743051e+04, 2.74778140e+04,\n", + " 3.34522708e+04, 3.95131276e+04, 4.17820422e+04, 4.20664111e+04,\n", + " 4.07569060e+04, 3.57098235e+04, 2.84201318e+04, 2.06082054e+04,\n", + " 1.43591503e+04, 9.28277724e+03, 5.65119988e+03, 3.47725293e+03,\n", + " 2.06716941e+03, 1.22311564e+03, 8.76927351e+02, 6.90124615e+02,\n", + " 5.35443212e+02, 3.89510499e+02, 3.09479117e+02, 2.84955892e+02,\n", + " 2.38546284e+02, 1.83561135e+02, 1.54020959e+02, 1.19441061e+02,\n", + " 1.01642851e+02, 8.38663118e+01, 7.64826062e+01, 7.29511472e+01,\n", + " 6.40885844e+01, 6.39146298e+01, 5.76840329e+01, 5.29692932e+01,\n", + " 4.95204305e+01, 4.46822213e+01, 4.45897527e+01, 3.86598345e+01,\n", + " 3.70692807e+01, 3.68835355e+01, 3.35437912e+01, 3.23466041e+01,\n", + " 3.04356863e+01, 3.22571323e+01, 2.99153772e+01, 2.80025225e+01,\n", + " 2.81364364e+01, 2.61955246e+01, 2.64803840e+01, 2.41601609e+01,\n", + " 2.22755742e+01, 2.26887470e+01, 2.14222352e+01, 2.27190297e+01],\n", + " [1.00000000e+01, 8.10157916e+01, 1.53295774e+01, 3.86806746e+00,\n", + " 2.55606574e+00, 1.42436448e+00, 1.03553582e+00, 7.42218942e-01,\n", + " 5.52015441e-01, 4.65091456e-01, 3.96220640e-01, 3.21261107e-01,\n", + " 2.90633158e-01, 2.48487749e-01, 2.13902731e-01, 1.92959728e-01,\n", + "...\n", + " 1.75920784e+02, 1.75462434e+02, 1.77385444e+02, 1.77265516e+02,\n", + " 1.78234387e+02, 1.76044620e+02, 1.76896189e+02, 1.77554782e+02,\n", + " 1.77379772e+02, 1.78268340e+02, 1.78255143e+02, 1.79515166e+02,\n", + " 1.79915464e+02, 1.79294718e+02, 1.80274342e+02, 1.78884768e+02],\n", + " [1.10000000e+00, 1.10000000e+00, 5.13758578e-01, 7.10762358e-01,\n", + " 8.11578193e-01, 9.09132572e-01, 9.11750832e-01, 9.52912637e-01,\n", + " 9.57434030e-01, 9.79312823e-01, 9.69590566e-01, 1.00961966e+00,\n", + " 1.01501443e+00, 1.04072569e+00, 1.03076437e+00, 1.03128894e+00,\n", + " 1.04638759e+00, 1.04446796e+00, 1.04406777e+00, 1.05492850e+00,\n", + " 1.03622512e+00, 1.02767912e+00, 1.01091421e+00, 9.75980332e-01,\n", + " 9.19591679e-01, 9.11770096e-01, 8.60156128e-01, 8.59200858e-01,\n", + " 7.98604406e-01, 7.94551000e-01, 7.81941080e-01, 7.57373234e-01,\n", + " 7.63314258e-01, 7.43304844e-01, 7.05794318e-01, 6.59952326e-01,\n", + " 6.13021408e-01, 5.87587545e-01, 5.74890649e-01, 5.32364098e-01,\n", + " 5.32295111e-01, 5.18818644e-01, 5.05445433e-01, 5.02325262e-01,\n", + " 5.10491451e-01, 5.00000000e-01, 5.05828686e-01, 5.00000000e-01,\n", + " 5.00000000e-01, 5.00000000e-01, 5.00000000e-01, 5.00000000e-01,\n", + " 5.00000000e-01, 5.00000000e-01, 5.00000000e-01, 5.00000000e-01,\n", + " 5.00000000e-01, 5.00000000e-01, 5.00000000e-01, 5.00000000e-01,\n", + " 5.00000000e-01, 5.00000000e-01, 5.00000000e-01, 5.00000000e-01]])
array([[1.00013109e+01, 1.52384616e+02, 3.61633798e+02, ...,\n", + " 1.94039740e+02, 1.94324216e+02, 1.93918518e+02],\n", + " [1.00028078e+01, 1.87321112e+02, 5.08207808e+02, ...,\n", + " 1.96840289e+02, 1.96957227e+02, 1.96698370e+02],\n", + " [1.00043826e+01, 2.24123965e+02, 6.19965793e+02, ...,\n", + " 1.98299076e+02, 1.98319989e+02, 1.98127945e+02],\n", + " ...,\n", + " [1.06708801e+01, 2.46219857e+04, 5.64750065e+03, ...,\n", + " 2.01983465e+02, 2.01696577e+02, 2.01603797e+02],\n", + " [1.07242679e+01, 2.82783354e+04, 5.89647837e+03, ...,\n", + " 2.01983465e+02, 2.01696577e+02, 2.01603797e+02],\n", + " [1.07744986e+01, 3.23548994e+04, 6.14246430e+03, ...,\n", + " 2.01983465e+02, 2.01696577e+02, 2.01603797e+02]])
array([[ 0. , 0.99959694, 0.9871915 , ..., 0.85778634,\n", + " 0.82204821, 0.86604236],\n", + " [ 0. , 0.99906358, 0.97066658, ..., 0.76497186,\n", + " 0.7397658 , 0.78674034],\n", + " [ 0. , 0.99866393, 0.95809464, ..., 0.70299025,\n", + " 0.6810774 , 0.71946869],\n", + " ...,\n", + " [ 0. , 0.98539009, 0.4540191 , ..., 0.27275862,\n", + " -0.09683656, -0.09489651],\n", + " [ 0. , 0.98461401, 0.4867419 , ..., 0.32901286,\n", + " 0.21002625, 0.13879852],\n", + " [ 0. , 0.98635641, 0.42712011, ..., 0.13873015,\n", + " 0.43195264, 0.49663365]])
array([[ 0. , 294.18943955, 321.41822078, ..., 192.93331805,\n", + " 193.46556826, 192.76671589],\n", + " [ 0. , 432.05714374, 490.9677582 , ..., 194.84772175,\n", + " 195.06799833, 194.40459328],\n", + " [ 0. , 535.36374381, 619.95883018, ..., 196.12616285,\n", + " 196.21094092, 195.79399928],\n", + " ...,\n", + " [ 0. , 3966.56056507, 5791.89215548, ..., 205.00017796,\n", + " 211.36062787, 212.61362392],\n", + " [ 0. , 4167.1712352 , 5456.14848464, ..., 203.8398704 ,\n", + " 205.38454854, 207.78696548],\n", + " [ 0. , 3716.77402137, 6067.88205869, ..., 207.76466695,\n", + " 201.06258553, 200.39635905]])
array([-1.90000000e+02, 2.58493018e+05, 1.02602346e+04, 1.15497914e+04,\n", + " 1.68195629e+04, 1.91789308e+04, 1.97920750e+04, 2.04739243e+04,\n", + " 1.98628174e+04, 2.14217457e+04, 2.30787136e+04, 2.75439244e+04,\n", + " 3.36077443e+04, 3.95384367e+04, 4.21701356e+04, 4.26722045e+04,\n", + " 4.10361202e+04, 3.58616144e+04, 2.83223278e+04, 2.06264656e+04,\n", + " 1.43607517e+04, 9.18098831e+03, 5.57030056e+03, 3.36316630e+03,\n", + " 1.93279536e+03, 1.17701023e+03, 8.05816138e+02, 6.46477276e+02,\n", + " 4.86766556e+02, 3.54100454e+02, 2.81344652e+02, 2.59050811e+02,\n", + " 2.16860258e+02, 1.66873759e+02, 1.40019053e+02, 1.08582782e+02,\n", + " 9.24025916e+01, 7.62421017e+01, 6.95296420e+01, 6.63192247e+01,\n", + " 5.82623495e+01, 5.81042089e+01, 5.24400299e+01, 4.81539029e+01,\n", + " 4.50185732e+01, 4.06202012e+01, 4.05361388e+01, 3.51453041e+01,\n", + " 3.36993461e+01, 3.35304868e+01, 3.04943557e+01, 2.94060037e+01,\n", + " 2.76688057e+01, 2.93246657e+01, 2.71957975e+01, 2.54568387e+01,\n", + " 2.55785786e+01, 2.38141133e+01, 2.40730764e+01, 2.19637827e+01,\n", + " 2.02505220e+01, 2.06261336e+01, 1.94747592e+01, 2.06536633e+01])
array(190)
<xarray.Dataset>\n",
+ "Dimensions: (parameter: 4, q: 64, lagtime: 40)\n",
+ "Coordinates:\n",
+ " * parameter (parameter) <U13 'Amplitude' 'Tau' ... 'StretchingExp'\n",
+ " * q (q) float64 0.0 0.2028 0.4057 0.6085 ... 12.37 12.58 12.78\n",
+ " * lagtime (lagtime) float64 0.02398 0.04796 0.07194 ... 12.59 14.36\n",
+ "Data variables:\n",
+ " parameters (parameter, q) float64 1.0 2.326e+05 ... 0.85 0.85\n",
+ " theory (lagtime, q) float64 10.0 78.85 304.9 ... 200.8 200.6 200.4\n",
+ " isf_data (lagtime, q) float64 0.0 0.9996 0.9872 ... 0.432 0.4966\n",
+ " ddm_matrix_data (lagtime, q) float64 0.0 294.2 321.4 ... 207.8 201.1 200.4\n",
+ " A (q) float64 -190.0 2.585e+05 1.026e+04 ... 19.47 20.65\n",
+ " B int32 190\n",
+ "Attributes: (12/18)\n",
+ " model: DDM Matrix - Single Exponential\n",
+ " data_to_use: DDM Matrix\n",
+ " initial_params_dict: ["{'n': 0, 'value': 100.0, 'limits': [1.0...\n",
+ " effective_diffusion_coeff: 0.6779463827208101\n",
+ " tau_vs_q_slope: [-1.84532034]\n",
+ " msd_alpha: [1.08382266]\n",
+ " ... ...\n",
+ " DataDirectory: C:/Users/rmcgorty/Documents/GitHub/PyDDM/...\n",
+ " FileName: images_nobin_40x_128x128_8bit.tif\n",
+ " pixel_size: 0.242\n",
+ " frame_rate: 41.7\n",
+ " BackgroundMethod: None\n",
+ " OverlapMethod: 2array(['Amplitude', 'Tau', 'Background', 'StretchingExp'], dtype='<U13')
array([ 0. , 0.20284 , 0.405681, 0.608521, 0.811362, 1.014202,\n", + " 1.217043, 1.419883, 1.622723, 1.825564, 2.028404, 2.231245,\n", + " 2.434085, 2.636926, 2.839766, 3.042607, 3.245447, 3.448287,\n", + " 3.651128, 3.853968, 4.056809, 4.259649, 4.46249 , 4.66533 ,\n", + " 4.86817 , 5.071011, 5.273851, 5.476692, 5.679532, 5.882373,\n", + " 6.085213, 6.288053, 6.490894, 6.693734, 6.896575, 7.099415,\n", + " 7.302256, 7.505096, 7.707937, 7.910777, 8.113617, 8.316458,\n", + " 8.519298, 8.722139, 8.924979, 9.12782 , 9.33066 , 9.5335 ,\n", + " 9.736341, 9.939181, 10.142022, 10.344862, 10.547703, 10.750543,\n", + " 10.953383, 11.156224, 11.359064, 11.561905, 11.764745, 11.967586,\n", + " 12.170426, 12.373267, 12.576107, 12.778947])
array([ 0.023981, 0.047962, 0.071942, 0.095923, 0.119904, 0.143885,\n", + " 0.167866, 0.191847, 0.215827, 0.263789, 0.28777 , 0.335731,\n", + " 0.383693, 0.431655, 0.503597, 0.57554 , 0.647482, 0.743405,\n", + " 0.863309, 0.983213, 1.127098, 1.294964, 1.486811, 1.702638,\n", + " 1.942446, 2.206235, 2.541966, 2.901679, 3.309353, 3.788969,\n", + " 4.316547, 4.940048, 5.659472, 6.450839, 7.386091, 8.441247,\n", + " 9.640288, 11.007194, 12.589928, 14.364508])
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array(190)