Skip to main content

A suite of tools for Reconstructing Genomes and Quantifying Allele Specific Expression from RNA-Seq data

Project description

====
GBRS
====

.. image:: https://img.shields.io/pypi/v/gbrs.svg
:target: https://pypi.python.org/pypi/gbrs

.. image:: https://anaconda.org/kbchoi/gbrs/badges/version.svg
:target: https://anaconda.org/kbchoi/gbrs

.. image:: https://travis-ci.org/churchill-lab/gbrs.svg?branch=master
:target: https://travis-ci.org/churchill-lab/gbrs

.. image:: https://readthedocs.org/projects/gbrs/badge/?version=latest
:target: https://readthedocs.org/projects/gbrs/?badge=latest
:alt: Documentation Status


Overview
--------

**GBRS** is a suite of tools for reconstructing genomes using RNA-Seq data from multiparent population and quantifying allele specific expression. Although we tested it with mouse models only, GBRS should work for any multiparent populations. If you are interested in using it for other multiparent population model, please contact Kwangbom "KB" Choi <kb.choi@jax.org> at The Jackson Laboratory. For the Diversity Outbred (DO https://www.jax.org/strain/009376), Collaborative Cross (CC) mice, or F1 hybrids of CC's (CCRIX), required data files are available at ftp://churchill-lab.jax.org/pub/software/GBRS/.

* Free software: GPLv3 license
* Documentation: https://gbrs.readthedocs.org.


References
----------

Manuscript in preparation (Expected in 2016)


=======
History
=======

0.1.5 (05/04/2016)
~~~~~~~~~~~~~~~~~~

* ``compress`` subcommand also merges emase files
* ``reconstruct`` does not require ``ref.gene_ids.ordered.npz`` file anymore

0.1.4 (05/04/2016)
~~~~~~~~~~~~~~~~~~

* Uploaded to Anaconda Cloud

0.1.2 (04/27/2016)
~~~~~~~~~~~~~~~~~~

* Setup Travis CI automated building

0.1.1 (04/27/2016)
~~~~~~~~~~~~~~~~~~

* Moved to github churchill-lab space
* First release onto PyPI

0.1.0 (01/22/2016)
~~~~~~~~~~~~~~~~~~

* Started a private project on bitbucket.

Project details


Download files

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

Filename, size & hash SHA256 hash help File type Python version Upload date
gbrs-0.1.5.tar.gz (34.9 kB) Copy SHA256 hash SHA256 Source None

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 SignalFx SignalFx Supporter DigiCert DigiCert EV certificate StatusPage StatusPage Status page