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        "description": "# inferelator \n\n[![Travis](https://travis-ci.org/flatironinstitute/inferelator.svg?branch=master)](https://travis-ci.org/flatironinstitute/inferelator)\n[![codecov](https://codecov.io/gh/flatironinstitute/inferelator/branch/master/graph/badge.svg)](https://codecov.io/gh/flatironinstitute/inferelator)\n\nThe inferelator package for python; a fork of the currently-inactive [inferelator_ng](https://github.com/simonsfoundation/inferelator_ng) repository that works for both single-cell and bulk transcriptome experiments. Currently includes [AMuSR](https://github.com/simonsfoundation/multitask_inferelator/tree/AMuSR/inferelator_ng) [(Castro et al 2019)](https://doi.org/10.1371/journal.pcbi.1006591) and elements of [InfereCLaDR](https://github.com/simonsfoundation/inferelator_ng/tree/InfereCLaDR) [(Tchourine et al 2018)](https://doi.org/10.1016/j.celrep.2018.03.048).\n\nTo install the python packages needed for the inferelator, run `pip install -r requirements.txt`. To install the python packages needed for the inferelator multiprocessing functionality, run `pip install -r requirements-multiprocessing.txt`. To install this package, run `python setup.py install`\n\nBasic workflows for ***Bacillus subtilis*** and ***Saccharomyces cerevisiae*** are included with a tutorial.\n\nAll current example data and scripts are available from Zenodo [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.3355524.svg)](https://doi.org/10.5281/zenodo.3355524)\n\n\n",
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