Pooling

Source code for combinatorial pooling project:

1) Core pooling project: https://github.com/skumsp/Pooling

2) Maximum Likelihood k-Clustering of viral sequences: https://github.com/night-stalker/KGEM/tree/clustering

3) KEC viral NGS data processing (used as an auxiliary library in the core pooling project): https://github.com/skumsp/ErrorCorrection

The following external libraries are required:

1) Biojava (http://biojava.org/)

2) Commons-math (http://commons.apache.org/proper/commons-math/)

3) Commons-io (http://commons.apache.org/proper/commons-io/)

Experimental pooling NGS data sets used for the framework testing are available here:

http://alan.cs.gsu.edu/~skumsp/Pooling_experiments.rar