pandas-plink

PLINK reader for Python. It reads binary PLINK files into Pandas data frame and Dask array. This package handles larger-than-memory data sets by reading the SNP matrix on-demand.

Install

The recommended way of installing it is via conda

conda install -c conda-forge pandas-plink

An alternative way would be via pip

pip install pandas-plink

Running the tests

After installation, you can test it

python -c "import pandas_plink; pandas_plink.test()"

as long as you have pytest.

Usage

It is as simple as

from pandas_plink import read_plink
(bim, fam, G) = read_plink('/path/to/data')

Refer to the documentation for more information.

Authors

• Danilo Horta

License

This project is licensed under the MIT License - see the license file for details.