[Blends-commit] [Git][blends-team/med][master] ELPH is now in distribution

[Steffen Möller]

Steffen Möller pushed to branch master at Debian Blends Team / med


Commits:
55132ead by Steffen Möller at 2018-09-05T12:11:09Z
ELPH is now in distribution

Also Updated upstream URL of Lucy.
- - - - -


1 changed file:

- tasks/bio


Changes:

=====================================
tasks/bio
=====================================
@@ -78,6 +78,8 @@ Recommends: ghmm, hmmer
 
 Recommends: exonerate
 
+Recommends: elph
+
 Recommends: dialign
 
 Recommends: dialign-tx
@@ -1690,24 +1692,6 @@ Pkg-Description: The microRNA sequence database
  It is possible that mirbase will not be a package from the main archive, but
  will be autogenerated as part of a larger data packaging effort.
 
-Recommends: elph
-Homepage: http://www.cbcb.umd.edu/software/ELPH/
-License: Artistic
-Pkg-Description: motif finder that can find ribosome binding sites, exon splicing enhancers, or regulatory sites
- ELPH (Estimated Locations of Pattern Hits) is a general-purpose Gibbs
- sampler for finding motifs in a set of DNA or protein sequences. The
- program takes as input a set containing anywhere from a few dozen to
- thousands of sequences, and searches through them for the most common
- motif, assuming that each sequence contains one copy of the motif. We
- have used ELPH to find patterns such as ribosome binding sites (RBSs)
- and exon splicing enhancers (ESEs). See below for instructions on
- downloading the complete system, including source code.
- .
- An online tool that uses ELPH output for identifying exon splicing
- enhancers can be found at
- http://www.cbcb.umd.edu/software/SeeEse/index.html .
-Remark: Other sequence analysis tools (http://www.cbcb.umd.edu/software/)
-
 X-Recommends: repeatfinder
 X-Homepage: http://www.cbcb.umd.edu/software/RepeatFinder/
 X-License: Artistic
@@ -1951,7 +1935,7 @@ Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html.
  redistribution of their software. Someone please go for it.
 
 Recommends: lucy
-Homepage: http://rcc.uga.edu/applications/bioinformatics/lucy.html
+Homepage: http://lucy.sourceforge.net/
 License: GPL
 Responsible: BioLinux - Dan Swan <dswan at ceh.ac.uk>
 Pkg-URL: http://nebc.nox.ac.uk/bio-linux/dists/unstable/bio-linux/binary-i386/



View it on GitLab: https://salsa.debian.org/blends-team/med/commit/55132eadd15636faad18298453f8f96c454bd552

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