Scripts to identify pollen grains and tubes in images.
For information about the algorithms see the methodology.
To run the code, first create the data and output directories:
mkdir {data,output}
Then copy the data to be analysed into the data directory. Then, start the docker container with:
bash runcontainer.sh
If the data has been collected using a Leica microscope run:
python /code/annotate.py /data/ /output/
If the data has been collected using a Nikon E800 microscope run:
python /code/nikonE800_annotate.py /data/ /output/
The analysis will be available in the output directory.