chanjo 1.0.0-beta

Coverage analysis tool for clinical sequencing

<p align="center">
<a href="http://chanjo.co">
<img height="235"
width="244"
src="https://raw.githubusercontent.com/robinandeer/chanjo/master/assets/chanjo-logo.png"/>
</a>
</p>

# Chanjo [![PyPI version][fury-image]][fury-url] [![Build Status][travis-image]][travis-url]
Coverage analysis for clincal sequencing and beyond (documentation_).

```shell
$ cat intervals.bed
1 10 15 interval-1
2 45 55 interval-2
$ cat intervals.bed | chanjo annotate alignment.bam
#{"sample_id": "bavewira", ...}
1 10 15 interval-1 9.92231 0.97231
2 45 55 interval-2 14.23123 1.0
```

# Documentation
The [redesigned documentation](http://www.chanjo.co) has all the information you want; getting started guide, foolproof installation instructions, and in-depth overviews.

I can specifically recommend the fully [interactive demo](http://www.chanjo.co/en/latest/introduction.html#demo), complete with sample data to get you started right away.

# Installation
Complete instructions are available in the [documentation](http://www.chanjo.co) but installation (*can be*) as simple as running:

```shell
$ pip install chanjo
```

Contributors
-------------
Robin Andeer

Luca Beltrame ([lbeltrame](https://github.com/lbeltrame))


License
--------
MIT


[fury-url]: http://badge.fury.io/py/chanjo
[fury-image]: https://badge.fury.io/py/chanjo.png

[travis-url]: https://travis-ci.org/robinandeer/chanjo
[travis-image]: https://travis-ci.org/robinandeer/chanjo.png?branch=develop