From 39ea8ba5320419d9e179c15e62a1fdb077e45081 Mon Sep 17 00:00:00 2001
From: KroezeND <nkroeze@nd.edu>
Date: Thu, 17 Nov 2022 21:11:37 -0500
Subject: [PATCH 1/3] HW Changes

---
 Exercise9.R      |  37 ++++++++
 researchData.csv | 242 +++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 279 insertions(+)
 create mode 100644 Exercise9.R
 create mode 100644 researchData.csv

diff --git a/Exercise9.R b/Exercise9.R
new file mode 100644
index 0000000..da53e1b
--- /dev/null
+++ b/Exercise9.R
@@ -0,0 +1,37 @@
+# Nathan Kroeze
+# Exercise 9
+# 11/18/2022
+
+library(tidyverse)
+
+# Q1: Enter those data into a text file or Excel and then
+# save a text file, and write a script that loads this text file and produces a scatter plot of those two variables
+# that includes a trend line.
+
+setwd("C:/Users/Natha/Desktop/Biocomputing/Exercise09/")
+researchData <- read.csv("researchData.csv")
+researchData <- researchData[,-1] #remove count column
+
+ggplot(researchData, aes(d13C,d15N)) + 
+  geom_jitter() + geom_smooth(method = "lm") + 
+  labs(title = "Research Isotope Data")
+ 
+# Q2: Write a script that generates two figures that sumamrize the data. First, show
+# a barplot of the means of the four populations. Second, show a scatter plot of all of the observations.
+
+dataEx <- read.table("data.txt",header = TRUE, sep = ",")
+
+ggplot(data = dataEx, aes(x=region,y=observations)) + 
+  stat_summary(geom = "bar",fun = "mean") +
+  xlab("Region") + ylab("Means of Populations") + theme_bw() 
+
+ggplot(data = dataEx, aes(x=region,y=observations)) + 
+  geom_jitter() +
+  xlab("Region") + ylab("Observations") + theme_bw() 
+
+# Answers:
+# The plots tell different stories because the bar plot demonstrates that the average population for 
+# each region is roughly the same, however the scatter plot shows that the variance in these data are not
+# consistent across regions. For example, the western region has a wide variance of observations but
+# the northern region has a narrow densely populated band. This difference is lost in the bar plot and
+# would have been missed if not plotted separately.
diff --git a/researchData.csv b/researchData.csv
new file mode 100644
index 0000000..996a6a6
--- /dev/null
+++ b/researchData.csv
@@ -0,0 +1,242 @@
+"","d15N","d13C"
+"1",5.3,-28.9
+"2",4,-28.8
+"3",3.1,-28.8
+"4",3.5,-25.1
+"5",3.1,-27.1
+"6",3.2,-28.1
+"7",2.2,-28.1
+"8",3,-27.4
+"9",2.4,-28.7
+"10",3,-26.2
+"11",3,-26.7
+"12",3.1,-27.4
+"13",4.5,-26.4
+"14",3.3,-27.8
+"15",3.3,-28.5
+"16",3.2,-27.3
+"17",3,-26.4
+"18",3,-27.4
+"19",2.8,-22.7
+"20",3.9,-23.3
+"21",3.4,-22.4
+"22",3.7,-28
+"23",3.6,-28.8
+"24",3.3,-28.4
+"25",5.3,-28
+"26",3.5,-28.2
+"27",3.5,-29.1
+"28",3.1,-28.8
+"29",3.2,-28.9
+"30",2.9,-29
+"31",4.2,-20.3
+"32",4.2,-22.6
+"33",4.4,-24.4
+"34",2.8,-26.6
+"35",2.8,-28.4
+"36",3.1,-28.5
+"37",5,-27.5
+"38",3.7,-26.1
+"39",2.7,-28.5
+"40",2.5,-28.9
+"41",2.9,-27.5
+"42",2.1,-28.9
+"43",1.2,-26.8
+"44",2.2,-28.5
+"45",2.2,-28.3
+"46",3.6,-15.9
+"47",3.8,-16.8
+"48",3,-22.3
+"49",5.5,-24.7
+"50",3.6,-26.7
+"51",3,-27.2
+"52",3.5,-28.1
+"53",3,-28.6
+"54",3,-29.2
+"55",1.9,-27.3
+"56",3,-28.7
+"57",2.8,-29.2
+"58",2.1,-26.8
+"59",2.7,-28.5
+"60",2.4,-28.5
+"61",5.9,-27.2
+"62",4.4,-27
+"63",3.8,-28.1
+"64",3.9,-26.4
+"65",4.1,-27.1
+"66",4.2,-27.8
+"67",2.9,-26.6
+"68",3,-27
+"69",2.9,-28
+"70",3.1,-27.6
+"71",3,-28.8
+"72",2.5,-29.1
+"73",6.1,-20
+"74",3.3,-28.1
+"75",3.2,-28.5
+"76",3.6,-28.2
+"77",4,-28.2
+"78",3.7,-28.6
+"79",1.4,-28.3
+"80",1.5,-27.4
+"81",2.4,-28.2
+"82",3.4,-23
+"83",3.9,-22.9
+"84",3.5,-24.6
+"85",1.5,-27.9
+"86",3.6,-28.5
+"87",2.7,-28.5
+"88",2.9,-26.8
+"89",2.9,-28.1
+"90",2.9,-28.6
+"91",2.5,-26.8
+"92",2.3,-29.1
+"93",2.6,-28.9
+"94",2.2,-27.6
+"95",2.5,-28.6
+"96",2.7,-28.9
+"97",3.4,-24.8
+"98",3.9,-27.1
+"99",4.4,-28.3
+"100",2.1,-26.1
+"101",3.2,-28.8
+"102",3.4,-28.8
+"103",2.6,-27.5
+"104",2.9,-29.2
+"105",2.9,-29.1
+"106",2.4,-28.9
+"107",2.8,-28.8
+"108",2.8,-29
+"109",2.9,-28.9
+"110",3.3,-29.1
+"111",3.9,-29.1
+"112",3.1,-28.2
+"113",2.9,-29.2
+"114",3,-29.5
+"115",3.4,-28.9
+"116",3,-27.9
+"117",3.2,-28.7
+"118",2.3,-28.2
+"119",2.2,-29.1
+"120",2.5,-29.3
+"121",3.3,-28
+"122",3,-29.1
+"123",3.5,-29
+"124",3.5,-27.8
+"125",3.3,-30.7
+"126",2.6,-30.7
+"127",3.2,-27
+"128",2.9,-27.6
+"129",2.7,-28.4
+"130",3,-26.9
+"131",2.7,-28.2
+"132",2,-29.3
+"133",3,-26.2
+"134",3.2,-28.1
+"135",4,-28.3
+"136",3.1,-23
+"137",3.5,-27.9
+"138",3.3,-28.1
+"139",2.9,-25.4
+"140",2.6,-26.9
+"141",2.4,-28.2
+"142",3.4,-24.4
+"143",3.7,-25.4
+"144",3.1,-26.5
+"145",2.7,-27.9
+"146",2.7,-28.6
+"147",3,-28.5
+"148",3.8,-22.3
+"149",4,-26.3
+"150",3.5,-27
+"151",2.8,-27.7
+"152",3,-28.3
+"153",2.6,-28.5
+"154",3.2,-23.7
+"155",3.5,-25.2
+"156",3.2,-26.9
+"157",1.7,-26.2
+"158",2.5,-27.2
+"159",3.8,-28.4
+"160",3.9,-25.6
+"161",3.4,-27.1
+"162",3,-26.8
+"163",3.4,-26.1
+"164",3.3,-27.8
+"165",3.6,-28.2
+"166",2.4,-28
+"167",2.3,-29
+"168",2.5,-29.1
+"169",2.7,-23.4
+"170",2.8,-26.5
+"171",3.4,-28
+"172",2.8,-26.6
+"173",2.9,-26.7
+"174",2,-29.2
+"175",2,-27.4
+"176",2.5,-28.4
+"177",1.9,-28.5
+"178",2.3,-29.1
+"179",2.8,-27.5
+"180",2.3,-28.8
+"181",2.6,-25.3
+"182",2.6,-24.5
+"183",2.9,-27.8
+"184",4.2,-29.4
+"185",3.7,-29.9
+"186",2.7,-29.5
+"187",3.6,-14.5
+"188",3.2,-14.4
+"189",3.3,-14.3
+"190",3.7,-14.3
+"191",3.7,-13.8
+"192",3.8,-14.3
+"193",2.9,-30.1
+"194",3.8,-30.3
+"195",3.3,-30.1
+"196",3,-29.8
+"197",4.4,-29.5
+"198",2.9,-29.4
+"199",3.4,-14.5
+"200",3.2,-13.9
+"201",2.8,-14.2
+"202",2.3,-29.8
+"203",2,-30
+"204",1.4,-29.2
+"205",3.4,-13.9
+"206",2.3,-13.4
+"207",1.9,-13.6
+"208",1.5,-29.6
+"209",3,-30.2
+"210",1.3,-29.6
+"211",4,-14.5
+"212",3.3,-14.1
+"213",3,-14.2
+"214",3.1,-29.5
+"215",2.9,-31.2
+"216",3.3,-13.9
+"217",3.3,-29.3
+"218",1.8,-29.5
+"219",3.8,-14.3
+"220",2.3,-29.5
+"221",5.2,-29.6
+"222",4.7,-14.1
+"223",2.6,-29.8
+"224",2.1,-29.4
+"225",2.7,-28.7
+"226",3.6,-30.2
+"227",2.6,-29.8
+"228",2.1,-28.7
+"229",2.9,-29.2
+"230",1.7,-29.7
+"231",2.9,-29.6
+"232",3.5,-14.2
+"233",3.5,-29
+"234",3.4,-27.7
+"235",1.8,-29.3
+"236",2.4,-28.8
+"237",2.2,-28.6
+"238",2.4,-29.1
+"239",2.9,-25.7
+"240",3.1,-27.8
+"241",3,-28.1

From 16e2d5b0295798cb8aeabbed6fdde0a50cd9b8ac Mon Sep 17 00:00:00 2001
From: Nate Kroeze <nkroeze@nd.edu>
Date: Thu, 17 Nov 2022 21:15:57 -0500
Subject: [PATCH 2/3] HW Changes

---
 Exercise9.R      |  74 ++++----
 researchData.csv | 484 +++++++++++++++++++++++------------------------
 researchData.txt | 242 ++++++++++++++++++++++++
 3 files changed, 521 insertions(+), 279 deletions(-)
 create mode 100644 researchData.txt

diff --git a/Exercise9.R b/Exercise9.R
index da53e1b..d6d3029 100644
--- a/Exercise9.R
+++ b/Exercise9.R
@@ -1,37 +1,37 @@
-# Nathan Kroeze
-# Exercise 9
-# 11/18/2022
-
-library(tidyverse)
-
-# Q1: Enter those data into a text file or Excel and then
-# save a text file, and write a script that loads this text file and produces a scatter plot of those two variables
-# that includes a trend line.
-
-setwd("C:/Users/Natha/Desktop/Biocomputing/Exercise09/")
-researchData <- read.csv("researchData.csv")
-researchData <- researchData[,-1] #remove count column
-
-ggplot(researchData, aes(d13C,d15N)) + 
-  geom_jitter() + geom_smooth(method = "lm") + 
-  labs(title = "Research Isotope Data")
- 
-# Q2: Write a script that generates two figures that sumamrize the data. First, show
-# a barplot of the means of the four populations. Second, show a scatter plot of all of the observations.
-
-dataEx <- read.table("data.txt",header = TRUE, sep = ",")
-
-ggplot(data = dataEx, aes(x=region,y=observations)) + 
-  stat_summary(geom = "bar",fun = "mean") +
-  xlab("Region") + ylab("Means of Populations") + theme_bw() 
-
-ggplot(data = dataEx, aes(x=region,y=observations)) + 
-  geom_jitter() +
-  xlab("Region") + ylab("Observations") + theme_bw() 
-
-# Answers:
-# The plots tell different stories because the bar plot demonstrates that the average population for 
-# each region is roughly the same, however the scatter plot shows that the variance in these data are not
-# consistent across regions. For example, the western region has a wide variance of observations but
-# the northern region has a narrow densely populated band. This difference is lost in the bar plot and
-# would have been missed if not plotted separately.
+# Nathan Kroeze
+# Exercise 9
+# 11/18/2022
+
+library(tidyverse)
+
+# Q1: Enter those data into a text file or Excel and then
+# save a text file, and write a script that loads this text file and produces a scatter plot of those two variables
+# that includes a trend line.
+
+setwd("C:/Users/Natha/Desktop/Biocomputing/Exercise09/")
+researchData <- read.csv("researchData.csv")
+researchData <- researchData[,-1] #remove count column
+
+ggplot(researchData, aes(d13C,d15N)) + 
+  geom_jitter() + geom_smooth(method = "lm") + 
+  labs(title = "Research Isotope Data")
+ 
+# Q2: Write a script that generates two figures that sumamrize the data. First, show
+# a barplot of the means of the four populations. Second, show a scatter plot of all of the observations.
+
+dataEx <- read.table("data.txt",header = TRUE, sep = ",")
+
+ggplot(data = dataEx, aes(x=region,y=observations)) + 
+  stat_summary(geom = "bar",fun = "mean") +
+  xlab("Region") + ylab("Means of Populations") + theme_bw() 
+
+ggplot(data = dataEx, aes(x=region,y=observations)) + 
+  geom_jitter() +
+  xlab("Region") + ylab("Observations") + theme_bw() 
+
+# Answers:
+# The plots tell different stories because the bar plot demonstrates that the average population for 
+# each region is roughly the same, however the scatter plot shows that the variance in these data are not
+# consistent across regions. For example, the western region has a wide variance of observations but
+# the northern region has a narrow densely populated band. This difference is lost in the bar plot and
+# would have been missed if not plotted separately.
diff --git a/researchData.csv b/researchData.csv
index 996a6a6..89aecd5 100644
--- a/researchData.csv
+++ b/researchData.csv
@@ -1,242 +1,242 @@
-"","d15N","d13C"
-"1",5.3,-28.9
-"2",4,-28.8
-"3",3.1,-28.8
-"4",3.5,-25.1
-"5",3.1,-27.1
-"6",3.2,-28.1
-"7",2.2,-28.1
-"8",3,-27.4
-"9",2.4,-28.7
-"10",3,-26.2
-"11",3,-26.7
-"12",3.1,-27.4
-"13",4.5,-26.4
-"14",3.3,-27.8
-"15",3.3,-28.5
-"16",3.2,-27.3
-"17",3,-26.4
-"18",3,-27.4
-"19",2.8,-22.7
-"20",3.9,-23.3
-"21",3.4,-22.4
-"22",3.7,-28
-"23",3.6,-28.8
-"24",3.3,-28.4
-"25",5.3,-28
-"26",3.5,-28.2
-"27",3.5,-29.1
-"28",3.1,-28.8
-"29",3.2,-28.9
-"30",2.9,-29
-"31",4.2,-20.3
-"32",4.2,-22.6
-"33",4.4,-24.4
-"34",2.8,-26.6
-"35",2.8,-28.4
-"36",3.1,-28.5
-"37",5,-27.5
-"38",3.7,-26.1
-"39",2.7,-28.5
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-"43",1.2,-26.8
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-"45",2.2,-28.3
-"46",3.6,-15.9
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-"48",3,-22.3
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-"50",3.6,-26.7
-"51",3,-27.2
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-"55",1.9,-27.3
-"56",3,-28.7
-"57",2.8,-29.2
-"58",2.1,-26.8
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-"60",2.4,-28.5
-"61",5.9,-27.2
-"62",4.4,-27
-"63",3.8,-28.1
-"64",3.9,-26.4
-"65",4.1,-27.1
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-"67",2.9,-26.6
-"68",3,-27
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-"70",3.1,-27.6
-"71",3,-28.8
-"72",2.5,-29.1
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-"74",3.3,-28.1
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-"237",2.2,-28.6
-"238",2.4,-29.1
-"239",2.9,-25.7
-"240",3.1,-27.8
-"241",3,-28.1
+"","d15N","d13C"
+"1",5.3,-28.9
+"2",4,-28.8
+"3",3.1,-28.8
+"4",3.5,-25.1
+"5",3.1,-27.1
+"6",3.2,-28.1
+"7",2.2,-28.1
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+"9",2.4,-28.7
+"10",3,-26.2
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+"12",3.1,-27.4
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+"14",3.3,-27.8
+"15",3.3,-28.5
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+"17",3,-26.4
+"18",3,-27.4
+"19",2.8,-22.7
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+"28",3.1,-28.8
+"29",3.2,-28.9
+"30",2.9,-29
+"31",4.2,-20.3
+"32",4.2,-22.6
+"33",4.4,-24.4
+"34",2.8,-26.6
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diff --git a/researchData.txt b/researchData.txt
new file mode 100644
index 0000000..f780f66
--- /dev/null
+++ b/researchData.txt
@@ -0,0 +1,242 @@
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From ceae81b8d84356eb8fe5c2e497fe4a9ff6e70ee0 Mon Sep 17 00:00:00 2001
From: Nate Kroeze <nkroeze@nd.edu>
Date: Thu, 17 Nov 2022 21:17:34 -0500
Subject: [PATCH 3/3] Remove csv

---
 researchData.csv | 242 -----------------------------------------------
 1 file changed, 242 deletions(-)
 delete mode 100644 researchData.csv

diff --git a/researchData.csv b/researchData.csv
deleted file mode 100644
index 89aecd5..0000000
--- a/researchData.csv
+++ /dev/null
@@ -1,242 +0,0 @@
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