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convert between bioinformatics formats

Project description

Bioconvert is a project to facilitate the interconversion of life science data from one format to another.

https://badge.fury.io/py/bioconvert.svg https://secure.travis-ci.org/biokit/bioconvert.png https://coveralls.io/repos/github/biokit/bioconvert/badge.svg?branch=master Documentation Status https://badges.gitter.im/biokit/bioconvert.svg
note:Bioconvert is tested with Travis for the following Python version: 3.5 and 3.6. Python 2 won’t be provided.
contributions:Want to add a convertor ? Please join https://github.com/biokit/bioconvert/issues/1
issues:Please use https://github.com/biokit/bioconvert/issues

Installation

In order to install bioconvert, you can use pip:

pip install bioconvert

We also provide releases on bioconda (http://bioconda.github.io/):

conda install bioconvert

and Singularity container are available. See http://bioconvert.readthedocs.io/en/master/user_guide.html#installation for details.

Usage

bioconvert input.fastq output.fasta
bioconvert input.fq output.fasta
bioconvert input.mybam output.bed --input-format bam
bioconvert --formats
bioconvert --help

Available Converters

https://raw.githubusercontent.com/biokit/bioconvert/master/doc/conversion.png

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
bioconvert-0.2.0.tar.gz (1.9 MB) 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