[Debian-med-packaging] Bug#776709: ITP: toppred -- transmembrane topology prediction
tille at debian.org
Sat Jan 31 14:37:32 UTC 2015
Owner: Andreas Tille <tille at debian.org>
* Package name : toppred
Version : 1.10
Upstream Author : Eric Deveaud <edeveaud at pasteur.fr>
* URL : https://github.com/bioinfo-center-pasteur-fr/toppred
* License : GPL
Programming Lang: C
Description : transmembrane topology prediction
Toppred is a program to determine the topology of a transmembrane
protein based on G. von Heijne algorithm.
Each sequence from seq data in fasta format is processed, and toppred
generate the Hydrophobycity profile of the sequence, and the
corresponding hydrophobycities values in the file sequence-ID.hydro.
Furthermore, the predicted topologies are represented as png images.
Each topology is stored in file sequence-ID-number.png
The hydrophobicity profile is computed using a window formed by a core
rectangular window of size n, flanked by 2 triangular windows of size q.
NB rectangular and triangular mean that the ponderation values inside
those windows are respectively constant and variable.
This program is a new implementation of the original toppred program,
based on G. von Heijne algorithm
This package is maintained in the Debian Med team and was created
as demonstration in the Debian Med sprint. The VCS URL is
More information about the Debian-med-packaging