scikit-allel - Explore and analyse genetic variation

This package provides utility functions for working with large scale genetic variation data using numpy, scipy and other established Python scientific libraries.

This package is in an early stage of development, if you have any questions please email Alistair Miles <>.


This package requires numpy, scipy, matplotlib, pandas, h5py, numexpr and bcolz. Install dependencies first, then:

$ pip install -U scikit-allel



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