Bug#739508: ITP: fitgpc -- fitting genome coverage distributions with mixture models
Package: wnpp
Severity: wishlist
Owner: Andreas Tille <tille@debian.org>
* Package name : fitgpc
Version : 0.0.20130418
Upstream Author : Martin S. Lindner <LindnerM@rki.de>
* URL : http://sourceforge.net/projects/fitgcp/files/
* License : BSD
Programming Lang: Python
Description : fitting genome coverage distributions with mixture models
Genome coverage, the number of sequencing reads mapped to a position in
a genome, is an insightful indicator of irregularities within sequencing
experiments. While the average genome coverage is frequently used within
algorithms in computational genomics, the complete information available
in coverage profiles (i.e. histograms over all coverages) is currently
not exploited to its full extent. Thus, biases such as fragmented or
erroneous reference genomes often remain unaccounted for. Making this
information accessible can improve the quality of sequencing experiments
and quantitative analyses.
.
fitGCP is a framework for fitting mixtures of probability distributions
to genome coverage profiles. Besides commonly used distributions, fitGCP
uses distributions tailored to account for common artifacts. The mixture
models are iteratively fitted based on the Expectation-Maximization
algorithm.
This package is maintained by the Debian Med team and the packaging
is available at
git://anonscm.debian.org/debian-med/fitgpc.git
Reply to: