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.rousse...@baclesse.fr>wrote: > ** > > 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.rousse...@baclesse.fr > Tel : (33) 02.31.45.40.44 > Fax : (33) 02.31.45.50.53 > > > ___________________________________________________________ > The Galaxy User list should be used for the discussion of > Galaxy analysis and other features on the public server > at usegalaxy.org. Please keep all replies on the list by > using "reply all" in your mail client. For discussion of > local Galaxy instances and the Galaxy source code, please > use the Galaxy Development list: > > http://lists.bx.psu.edu/listinfo/galaxy-dev > > To manage your subscriptions to this and other Galaxy lists, > please use the interface at: > > http://lists.bx.psu.edu/ > -- Ross Lazarus MBBS MPH; Associate Professor, Harvard Medical School; Head, Medical Bioinformatics, BakerIDI; Tel: +61 385321444;
___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
