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Python package with E-distance tools for single-cell perturbation data analysis.

Project description

scperturb

A python package to compute E-distances in single-cell perturbation data and perform E-tests.

Install

Just install via pip:

pip install scperturb

Usage example

# E-distances
estats = edist(adata, obs_key='perturbation')
# E-distances to a specific group (e.g. 'control')
estats_control = estats.loc['control']
# E-test for difference to control
df = etest(adata, obs_key='perturbation', obsm_key='X_pca', dist='sqeuclidean', control='control', alpha=0.05, runs=100)

Check out notebooks --> e-distance for tutorial.

Project details


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