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Revision as of 00:06, 18 June 2014
, 00:06, 18 June 2014→How many variants are filtered out?
grep -v ^# $OUT/sv/discovery/discovery.vcf | cut -f 7 | sort | uniq -c
grep -v ^# $OUT/sv/discovery/discovery.vcf | cut -f 7 | sort | uniq -c
<div class="mw-collapsible mw-collapsed" style="width:800px">
You will see the following output
You will see the following output
<div class="mw-collapsible-content" style="width:800px">
7 COHERENCE;COVERAGE;DEPTH;DEPTHPVAL
7 COHERENCE;COVERAGE;DEPTH;DEPTHPVAL
17 COHERENCE;COVERAGE;DEPTH;DEPTHPVAL;PAIRSPERSAMPLE
17 COHERENCE;COVERAGE;DEPTH;DEPTHPVAL;PAIRSPERSAMPLE
5 COVERAGE;DEPTHPVAL;PAIRSPERSAMPLE
5 COVERAGE;DEPTHPVAL;PAIRSPERSAMPLE
5 COVERAGE;PAIRSPERSAMPLE
5 COVERAGE;PAIRSPERSAMPLE
</div>
</div>
== Run GotCloud SnpCall ==
== Run GotCloud SnpCall ==
