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Vt (view source)

Revision as of 16:51, 4 December 2015

150 bytes removed ,  16:51, 4 December 2015
→‎Remove overlap
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   #annotates indels from VCFs with VNTR information.
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   #annotates variants that are overlapping 
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   vt annotate_indels in.vcf -r hs37d5.fa -o annotated.sites.vcf
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   vt remove_overlap in.vcf -r hs37d5.fa -o overlapped.tagged..vcf
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  remove_overlap v0.57
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  description : Removes overlapping variants in a VCF file by tagging such variants with the FILTER flag overlap.
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   usage : vt remove_overlap [options] <in.vcf>
 
   usage : vt remove_overlap [options] <in.vcf>
  
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