Question: Re : % On-Off Target
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gravatar for Antoine ROUSSELIN
6.9 years ago by
Antoine ROUSSELIN20 wrote:
Hello, My English is very bad, it's a shame! My I have a file for my baits (create a bed file of your Agilent SureSelect targets with exons and introns captured). Sequencing output, I get the files. Bam, my result sets of alignments on the human genome complete (with CASAVA). I try to get the coverage I only exonic regions (+ or - 50 bp). Thanks 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 De: Ross [mailto:ross.lazarus@gmail.com] Date: mer. 12/21/2011 03:16 Ŕ: Antoine ROUSSELIN Cc: galaxy-user@lists.bx.psu.edu Objet : Re: [galaxy-user] % On-Off target 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 -- Ross Lazarus MBBS MPH; Associate Professor, Harvard Medical School; Head, Medical Bioinformatics, BakerIDI; Tel: +61 385321444;
galaxy • 739 views
ADD COMMENTlink modified 6.9 years ago by fubar1.1k • written 6.9 years ago by Antoine ROUSSELIN20
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gravatar for fubar
6.9 years ago by
fubar1.1k
Australia
fubar1.1k wrote:
Hi Antoine. Thanks - sorry, I haven't analysed that particular platform - anyone? http://picard.sourceforge.net/picard-metric- definitions.shtml#HsMetrics seems comprehensive... Why not try the Galaxy picard Hybrid Selection metrics tool on your data? On Wed, Dec 21, 2011 at 6:25 PM, Antoine ROUSSELIN -- Ross Lazarus MBBS MPH; Associate Professor, Harvard Medical School; Head, Medical Bioinformatics, BakerIDI; Tel: +61 385321444;
ADD COMMENTlink written 6.9 years ago by fubar1.1k
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