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Source: profphd
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Laszlo Kajan <lkajan@rostlab.org>,
Andreas Tille <tille@debian.org>
Section: science
Priority: extra
Build-Depends: cdbs,
debhelper (>= 7.0.50~),
perl,
rsync
Standards-Version: 3.9.4
Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/rostlab/profphd/trunk/
Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/rostlab/profphd/trunk/
Homepage: http://predictprotein.org/
Package: profphd
Architecture: all
Depends: ${perl:Depends},
${misc:Depends},
librg-utils-perl (>= 1.0.16),
profnet-prof,
profphd-utils,
profphd-net
Recommends: pp-popularity-contest
Conflicts: profphd-data,
profphd-perl
Replaces: profphd-data,
profphd-perl
Description: secondary structure and solvent accessibility predictor
This package provides prof(1), the protein secondary structure, accessibility
and transmembrane helix predictor from Burkhard Rost. Prediction is either
done from protein sequence alone or from an alignment - the latter should be
used for optimal performance.
.
How well does prof(1) perform?
.
* Secondary structure is predicted at an expected average accuracy > 72% for
the three states helix, strand and loop.
.
* Solvent accessibility is predicted at a correlation coefficient
(correlation between experimentally observed and predicted relative
solvent accessibility) of 0.54
.
* Transmembrane helix prediction has an expected per-residue accuracy of
about 95%. The number of false positives, i.e., transmembrane helices
predicted in globular proteins, is about 2%.
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