ColiCoords is a python project for analysis of fluorescence microscopy data from rodlike cells. The project is aimed to be an open, well documented platform where users can easily share data through compact hdf5 files and analysis pipelines in the form of Jupyter notebooks.
ColiCoords
is available on PyPi and Conda Forge. Currently, python >= 3.6 is required.
Installation by Conda.:
conda install -c conda-forge colicoords
For installation via PyPi a C++ compiler is required for installing the dependency mahotas. Alternatively, mahotas
can be installed separately from Conda.
To install ColiCoords
from pypi:
pip install colicoords
Although ColiCoords features automated testing, there are likely to be bugs. Users are encouraged to report them via the Issues page on GitHub.
Contact: jhsmit@gmail.com
Several examples of ColiCoords usage can be found in the examples directory.