Metadata-Version: 2.1
Name: mfishtoolspy
Version: 0.0.1
Summary: Tools for mFISH data analysis and gene panel selection
Home-page: https://github.com/AllenNeuralDynamics/mfishtoolspy.git
Author: Jinho Kim
Author-email: jinho.kim@alleninstitute.org
Classifier: Programming Language :: Python :: 3
Classifier: Operating System :: OS Independent
Requires-Python: >=3.7
Description-Content-Type: text/markdown
Requires-Dist: numpy
Requires-Dist: pandas
Requires-Dist: scipy
Requires-Dist: matplotlib
Requires-Dist: dask

# mfishtoolspy
- Tools to analysis mFISH data, including gene panel selection from reference dataset.
- This is a python version of https://github.com/AllenInstitute/mfishtools with slight modifications
  - Bootstrapping instead of subsampling
  - Multiple iterations (default=100) per gene addition instead of single random seed to increase reliability across repetition
  - Parallel computing using dask
  - Some functions are not included yet. (e.g., fraction_correct and dendrogram_height optimization)
- This is still in active development (as of 12/10/2024)

## How to install
`git clone https://github.com/AllenNeuralDynamics/mfishtoolspy.git`
`cd mfishtoolspy`
`pip install -e .`
