[Rmannounce] COSEG Beta Released
rhubley at systemsbiology.org
Mon Aug 11 11:51:57 PDT 2008
COSEG is a program which automatically identifies repeat subfamilies
using significant co-segregating ( 2-3 bp ) mutations.
This program is derived from three C programs and several perl scripts
written by Alkes Price as part of an analysis of Alu elements in the
human genome ( Whole-genome analysis of Alu repeat elements reveals
complex evolutionary history, Alkes L. Price, Eleazar Eskin, and Pavel
Pevzner, 2004 Genome Research ). The program was first adapted for use
with other repeat families and then extended to support consideration of
three co-segregating mutations using Alkes statistical model. In 2008
with the help of Andy Siegel an alternative statistical model was
developed and the codebase repackaged into the single source file.
The code may be downloaded from
We appreciate user feedback on this new software package.
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