Metadata-Version: 2.1
Name: deviaTE
Version: 0.2.1
Summary: Analysis and visualization of mobile genetic element composition
Home-page: https://github.com/W-L/deviaTE.git
Author: Lukas W
Author-email: UNKNOWN
License: LICENSE
Platform: UNKNOWN
Requires-Dist: pysam
Requires-Dist: pandas

# deviaTE

deviaTE is a python tool for the analysis and visualization of mobile genetic element sequences.

## Dependencies

* python 3.6+
* pip for python3 (https://pip.pypa.io/en/stable/installing/)
* samtools (tested with version 1.6 and 1.9)
* bwa (tested with version 0.7.17)
* R (tested with version 3.4.3)
  * required R packages are installed automatically upon first usage

samtools and bwa need to be in your `$PATH`


## Installation

```pip3 install git+https://github.com/W-L/deviaTE/```

## Usage manual and walkthroughs

A manual and a walkthrough with examples using publicly available data can be found here:

* [Manual](https://github.com/W-L/deviaTE/blob/master/doc/MANUAL.md) 
* [Walkthrough](https://github.com/W-L/deviaTE/blob/master/doc/WALKTHROUGH.md) 


## Bugs, issues, questions, suggestions ...
If you find any problems, have questions or ideas for further improvement please use the issue tracker on this repository, thanks!


## License
deviaTE is licensed under the GPLv3 License



