Hello Antoine, I'm not sure I really understand your question but if the metrics described at http://picard.sourceforge.net/picard-metric-definitions.shtml#HsMetrics are of use, you could try the picard hybrid selection metrics Galaxy tool or use it on the command line. Otherwise perhaps you can get a more helpful response if you provide a clear explanation of the data formats you have and the measures you want.
On Wed, Dec 21, 2011 at 2:59 AM, Antoine ROUSSELIN a.rousselin@baclesse.frwrote:
**
hello, I'm looking for a tool (or command line) to determine the % On-Off target
- or - 50 bp of exon from my capture file but not annotated (!!!). Capture
SureSelect agilent home.
Current pipeline: GAIIx Illumina CASAVA1.8 IGV CNV-seq SAMtools BEDtools GALAXY NextGENe
Please HELP
ROUSSELIN Antoine Clinical Biology and Oncology Laboratory Centre François BACLESSE France/Caen a.rousselin@baclesse.fr Tel : (33) 02.31.45.40.44 Fax : (33) 02.31.45.50.53
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