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Source: physamp
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>
Section: science
Priority: optional
Build-Depends: debhelper (>= 9),
cmake,
texinfo,
libbpp-phyl-dev (>= 2.2.0)
Standards-Version: 3.9.8
Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/physamp.git
Vcs-Git: https://anonscm.debian.org/git/debian-med/physamp.git
Homepage: http://biopp.univ-montp2.fr/forge/physamp
Package: physamp
Architecture: any
Depends: ${shlibs:Depends},
${misc:Depends}
Description: sample sequence alignment according to its corresponding phylogenetic tree
The PhySamp package currently contains one program, bppalnoptim, which
samples a sequence alignment by removing sequences in order to maximize
the number of sites suitable for a given analysis. The program has three
running modes:
* Interactive: the user will be iteratively proposed a set of choices
for sequence removal, with their corresponding site gains. The
procedure stops when the user does not want to remove more sequences,
and the resulting filtered alignment is written.
* Automatic: the user enters an a priori criterion for stopping
the filtering procedure (for instance a minimum number of
sequences to keep).
* Diagnostic: this mode allows one to plot the trade-off curve, by showing
the site gain as a function of the number of removed sequences.
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