Skip to main content

Use pybedtools intersect to gain target gene information in pandas dataframes

Project description

TargetGeneIntersect

https://img.shields.io/pypi/v/targeneintersect.svg https://img.shields.io/travis/isabelleberger/targeneintersect.svg Documentation Status Updates

A baby package that uses pybedtools intersect to gain target gene names for genomic data in a pandas dataframe. My first attempt at packaging, as well as a useful little tool for something I end up copying and pasting all the time.

Features

  • Input a BED formatted gene file and a BED formatted dataframe of genomic data
  • Receive a dataframe that now includes target gene names

Credits

This package is based on the BEDTools function intersect, as implemented in python by pybedtools. This package was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.

History

0.1.0 (2018-06-25)

  • First release on PyPI.

0.2.0 (2018-06-29)

  • Fixed code style
  • Added pytest testing
  • Added travis CI

0.2.1 (2018-06-29)

  • Fixes a mistake with travis CI

Project details


Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Files for targeneintersect, version 0.2.4
Filename, size File type Python version Upload date Hashes
Filename, size targeneintersect-0.2.4-py2.py3-none-any.whl (3.0 kB) File type Wheel Python version py2.py3 Upload date Hashes View hashes
Filename, size targeneintersect-0.2.4-py3.6.egg (3.9 kB) File type Egg Python version 3.6 Upload date Hashes View hashes
Filename, size targeneintersect-0.2.4.tar.gz (217.9 kB) File type Source Python version None Upload date Hashes View hashes

Supported by

Elastic Elastic Search Pingdom Pingdom Monitoring Google Google BigQuery Sentry Sentry Error logging AWS AWS Cloud computing DataDog DataDog Monitoring Fastly Fastly CDN DigiCert DigiCert EV certificate StatusPage StatusPage Status page