pool-sharq: python interface for Broad Institute GPP's poolq software.
Project description
pool-sharq
Python wrapper for the Broad Institute GPP's poolq software
Uses the BeautifulSoup webscraping library to check for the latest distribution of poolq from the Broad Institute's GPP. Downloads the latest distribution if it is not already downloaded.
Install
pip install pool_sharq
Usage
import pool_sharq
poolq = pool_sharq.poolq(dir="/path/to/data/") # contains rows.txt and columns.txt along with fastq files.
poolq.run()
You can also download / use test data provided by the GPP
pool_sharq.download_test_data()
poolq = pool_sharq.poolq() # point to test data
poolq.run()
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