[Blends-commit] r2472 - /projects/med/trunk/debian-med/tasks/bio

[tille at users.alioth.debian.org]

Author: tille
Date: Mon Nov 22 15:23:26 2010
New Revision: 2472

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=2472
Log:
Added maqview

Modified:
    projects/med/trunk/debian-med/tasks/bio

Modified: projects/med/trunk/debian-med/tasks/bio
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/tasks/bio?rev=2472&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Mon Nov 22 15:23:26 2010
@@ -3294,6 +3294,29 @@
  interesting for giving users some comfort.  Until this software is not yet packaged
  you can follow the hint at the homepage how to use it with R.
 
+Depends: maqview
+WMPP: 604497
+License: GPL2
+Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/maqview/trunk/
+Responsible: Andreas Tille <tille at debian.org>
+Pkg-Description: graphical read alignment viewer for short gene sequences
+ Maqview is graphical read alignment viewer. It is specifically designed
+ for the Maq alignment file and allows you to see the mismatches, base
+ qualities and mapping qualities. Maqview is nothing fancy as Consed or
+ GAP, but just a simple viewer for you to see what happens in a
+ particular region.             
+ .
+ In comparison to tgap-maq, the text-based read alignment viewer writen
+ by James Bonfield, Maqview is faster and takes up much less memory and
+ disk space in indexing. This is possibly because tgap aims to be a 
+ general-purpose viewer but Maqview fully makes use of the fact that a 
+ Maq alignment file has already been sorted. Maqview is also efficient in
+ viewing and provides a command-line tool to quickly retrieve any region
+ in an Maq alignment file.       
+ .
+ Maqview is based on OpenGL. Installing OpenGL on your system is the                                       trade-off of getting a better feel and look. The following screenshots
+ show the two viewing modes of Maqview.
+
 
 Comment: Several related R packages are listed at CRAN:
          http://cran.r-project.org/web/views/Genetics.html