RA Tools for Resequencing Arrays

RA Tools provides a rigorous framework for the analysis of resequencing microarrays. RA Tools is being released as part of the DPGP project to provide open source tools for resequencing and population genomics.

RA Tools consists of three modules:

The most current documentation on compiling and using RA Tools is available here:

The algorithm for base calling is published in the following reference:

High-throughput variation detection and genotyping using microarrays.
Cutler DJ, Zwick ME, Carrasquillo MM, Yohn CT, Tobin KP, Kashuk C, Mathews DJ, Shah NA, Eichler EE, Warrington JA, Chakravarti A.
Genome Res. 2001 Nov;11(11):1913-25.
[FULL TEXT]

CVS

The latest sourcecode is available at the
DPGP Anonymous CVS

Developer documentation for the repository
DPGP WIKI: Developer Access to CVS