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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 Aug 8, 2018

Supported by

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