MQ2 0.2.0

MQ² aims at extracting and find QTLs from MapQTL output

Author:

Pierre-Yves Chibon <[e-mail]>, <[e-mail]>

A simple python module to process output from MapQTL analysis.

Assuming one QTL per linkage group and using the LOD threshold set by the user. This application extracts all the QTLs detected by MapQTL, using the JoinMap map file, it finds the closest marker and finally put the number of QTLs found for each marker on the map.

This approach quickly allows you to find potential QTL hotspot in your dataset. This is particularly usefull for large QTL analysis on a large number of traits.

Get this project:

Sources: https://github.com/PBR/MQ2

Release: http://pypi.python.org/packages/source/M/MQ2/MQ2-0.2.0.tar.gz

Run it on the web at: http://www.plantbreeding.wur.nl/mq2

Documentation:

The project contains some documentation on how to install, run and contribute to this project.

The documentation can be found: - online at: https://github.com/PBR/MQ2/tree/master/doc

Run the project:

To run the project, simply run the MQ2 script provided.

See MQ2 --help or MQ2 -h for the different argument available.

Testing:

This project contains unit-tests allowing you to check if the code behaves as it should.

To run them, two ways, either:

nosetests

from the MQ2 folder, or:

python test.py

within the test folder

Note

if you have python-coverage installed you can also run the tests as follows to get coverage information:

nosetests --with-coverage

License:

This project is licensed GPLv3+.