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+++ b/README	Tue Feb 12 04:48:36 2013 -0500
@@ -0,0 +1,30 @@
+qualimap - 1.0.0
+=====================================================================
+<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
+
+   ) Third party code installation
+	Required: qualimap JAR archives.  
+
+   ) Integration into Galaxy
+	Please use the toolshed
+
+DETAILS AND ISSUES
+------------------
+   ) Only bamqc provided in this first version
+   ) bamqc: allow passing number of threads, and take into account number of 'chunks'
+   ) bamqc: 
+
+=====================================================================