<commit_before><p align="center">
  <img alt="Transrate - understand your transcriptome assembly" src="https://github.com/Blahah/transrate/raw/master/docs/transrate_logo_full.png">
</p>

Download latest binaries: [![Download](https://api.bintray.com/packages/blahah/generic/transrate/images/download.svg)][bintray]

Need help? Chat to us live: [![Gitter](https://badges.gitter.im/Join Chat.svg)](https://gitter.im/Blahah/transrate?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge)


## Development status

[![Gem Version](http://img.shields.io/gem/v/transrate.svg)][gem]
![Downloads](http://img.shields.io/gem/dtv/transrate.svg)
![Total Downloads](http://img.shields.io/gem/dt/transrate.svg)
[![Build Status](http://img.shields.io/travis/Blahah/transrate/master.svg)][travis]
[![Dependency Status](http://img.shields.io/gemnasium/Blahah/transrate.svg)][gemnasium]
[![Code Climate](http://img.shields.io/codeclimate/github/Blahah/transrate.svg)][codeclimate]
[![Coverage Status](http://img.shields.io/coveralls/Blahah/transrate.svg)][coveralls]

[gem]: https://badge.fury.io/rb/transrate
[travis]: https://travis-ci.org/Blahah/transrate
[gemnasium]: https://gemnasium.com/Blahah/transrate
[codeclimate]: https://codeclimate.com/github/Blahah/transrate
[coveralls]: https://coveralls.io/r/Blahah/transrate
[bintray]: https://bintray.com/blahah/generic/transrate/_latestVersion

This software is being actively developed. Please be aware that there may be bugs. If you find any, please report them on the [issue tracker](https://github.com/Blahah/transrate/issues).

## Citation

Transrate is pre-publication academic software. If you use it, please cite [the preprint on biorXiv](http://dx.doi.org/10.1101/021626).

## Documentation

**transrate** is documented [on the website](http://hibberdlab.com/transrate).

## Contributing

Interested in helping? Great! We particularly would like help with the following:

- code review
- documentation review
- adding features that are already discussed and approved on the issue tracker
- tackling bugs

For any of these, please just pick an appropriate issue [on the tracker](https://github.com/Blahah/transrate/issues) and make a pull request.<commit_msg>Link to CITATION.md in README<commit_after><p align="center">
  <img alt="Transrate - understand your transcriptome assembly" src="https://github.com/Blahah/transrate/raw/master/docs/transrate_logo_full.png">
</p>

Download latest binaries: [![Download](https://api.bintray.com/packages/blahah/generic/transrate/images/download.svg)][bintray]

Need help? Chat to us live: [![Gitter](https://badges.gitter.im/Join Chat.svg)](https://gitter.im/Blahah/transrate?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge)


## Development status

[![Gem Version](http://img.shields.io/gem/v/transrate.svg)][gem]
![Downloads](http://img.shields.io/gem/dtv/transrate.svg)
![Total Downloads](http://img.shields.io/gem/dt/transrate.svg)
[![Build Status](http://img.shields.io/travis/blahah/transrate/master.svg)][travis]
[![Dependency Status](http://img.shields.io/gemnasium/blahah/transrate.svg)][gemnasium]
[![Code Climate](http://img.shields.io/codeclimate/github/blahah/transrate.svg)][codeclimate]
[![Coverage Status](http://img.shields.io/coveralls/blahah/transrate.svg)][coveralls]

[gem]: https://badge.fury.io/rb/transrate
[travis]: https://travis-ci.org/blahah/transrate
[gemnasium]: https://gemnasium.com/blahah/transrate
[codeclimate]: https://codeclimate.com/github/blahah/transrate
[coveralls]: https://coveralls.io/r/blahah/transrate
[bintray]: https://bintray.com/blahah/generic/transrate/_latestVersion

This software is being actively developed. Please be aware that there may be bugs. If you find any, please report them on the [issue tracker](https://github.com/blahah/transrate/issues).

## Citation

Transrate is academic software. If you use it for work leading to a publication, you should cite [the paper](https://github.com/blahah/transrate/blob/master/CITATION.md).

## Documentation

**transrate** is documented [on the website](http://hibberdlab.com/transrate).

## Contributing

Interested in helping? Great! We particularly would like help with the following:

- code review
- documentation review
- adding features that are already discussed and approved on the issue tracker
- tackling bugs

For any of these, please just pick an appropriate issue [on the tracker](https://github.com/blahah/transrate/issues) and make a pull request.
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