MQ² aims at extracting and find QTLs from MapQTL output
Assuming one QTL per linkage group and using the LOD threshold set by the user. This application extracts all the QTLs detected by the QTL mapping tool, it finds the closest marker and finally put the number of QTLs found for each marker on the genetic 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:
Run it on the web at: http://www.plantbreeding.nl/mq2
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 - as pdf at: https://github.com/PBR/MQ2/tree/master/MQ2_doc.pdf?raw=true
Run the project:
To run the project, simply run the MQ2 script provided.
See MQ2 --help or MQ2 -h for the different argument available.
This project contains unit-tests allowing you to check if the code behaves as it should.
To run them, two ways, either:
python setup.py nosetest
You will need to have python-coverage installed to run the test via runtest.sh
This project is licensed GPLv3+.