Mercurial > repos > joachim-jacob > qualimap_suite

view README @ 5:f6ffb9aa409e draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Adding some more info
author Joachim Jacob <joachim.jacob@gmail.com>
date Wed, 20 Mar 2013 09:41:43 +0100
parents 3d690162d629
children
line wrap: on
line source

qualimap - 1.0.1
=====================================================================
<joachim.jacob@vib.be>

SUMMARY
-------
Qualimap examines sequencing alignment data in SAM/BAM files and provides an overall view of the data that helps to the detect biases in the sequencing and/or mapping of the data and eases decision-making for further analysis. 

http://qualimap.bioinfo.cipf.es/

Garcia-Alcalde et.al, (2012) Qualimap: evaluating next generation sequencing aligmnent data,
Bioinformatics. doi: 10.1093/bioinformatics/bts503 
	  
REQUIREMENTS AND INSTALLATION
-----------------------------
Install this tool in your Galaxy via the Toolshed

   ) Required dependencies:
	- Qualimap 0.6 available in the PATH
	- Perl >= 5.10
	- Perl core module File::Temp and File::Basename
	- Perl module Log::Log4perl	

   ) Integration into Galaxy
	Please use the toolshed

DETAILS AND ISSUES
------------------
   ) Qualimap suite provide various quality control tools to apply 
     after mapping. Only bamqc is provided in this first version
   ) bamqc reports various statistics of an alignment.

=====================================================================