AUTOFISH PACKAGE FOR IMAGE ANALYSIS

Python library for image analysis of FISH images. The package is specially designed to work with the autoFISH project https://github.com/fish-quant/autofish

Installation

Fisrt create a conda environnement with the required packages:

conda env create --file autofish_analysis.yml 

The package is not yet on PyPI. Clone this repository and use: bash pip install -e .

tutorial

The repository contains tutorial notebooks to get started with the package.

add the conda environnement to jupyter notebook:

python -m ipykernel install --user --name=autofish_analysis

You can download example data : https://cloud.minesparis.psl.eu/index.php/s/i9HaU36Fx3rokXB

Documentation

todo

Reporting a problem/suggestion

If you encounter a problem or you have a suggestion, please file an issue.