pdl30 / pyatactools

Pipeline for ATAC-seq analysis

#pyatactools

#Please note this is still in alpha stage of development and probably won't work!

Installation

Clone this repository and then:

$ cd pyatactools/
$ python setup.py install --user

This will install the scripts in the pyatactools/scripts directory. For more information on the individual scripts, use the --help command after each script.

##Core Pipeline

• pyatac_preprocess.py -- Preprocesses ATAC-seq sam files to bed and bedgraph files