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Revision as of 09:19, 4 December 2013

2,420 bytes added ,  09:19, 4 December 2013
→‎Merge duplicate variants
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=== Merge duplicate variants ===
 
=== Merge duplicate variants ===
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<div class=" mw-collapsible mw-collapsed">
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Merges duplicate variants by position with the option of considering alleles.  (This just discards the duplicate variant that appears later in the VCF file)
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<div class="mw-collapsible-content">
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</div>
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</div>
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<div class=" mw-collapsible mw-collapsed">
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  #merge duplicate variants and save output in mills.merged.vcf
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  vt mergedups mills.vcf -o mills.merged.vcf
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<div class="mw-collapsible-content">
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  usage : vt mergedups [options] <in.vcf>
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  options : -o  output VCF file [-]
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            -p  merge by position [false]
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</div>
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</div>
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=== Discover ===
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<div class=" mw-collapsible mw-collapsed">
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Merges duplicate variants by position with the option of considering alleles.  (This just discards the duplicate variant that appears later in the VCF file)
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<div class="mw-collapsible-content">
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</div>
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</div>
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<div class=" mw-collapsible mw-collapsed">
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  #merge duplicate variants and save output in mills.merged.vcf
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  vt mergedups mills.vcf -o mills.merged.vcf
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<div class="mw-collapsible-content">
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  usage : vt mergedups [options] <in.vcf>
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  options : -o  output VCF file [-]
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            -p  merge by position [false]
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</div>
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</div>
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=== Merge candidate variants ===
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<div class=" mw-collapsible mw-collapsed">
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Merges duplicate variants by position with the option of considering alleles.  (This just discards the duplicate variant that appears later in the VCF file)
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<div class="mw-collapsible-content">
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</div>
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</div>
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 +
<div class=" mw-collapsible mw-collapsed">
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  #merge duplicate variants and save output in mills.merged.vcf
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  vt mergedups mills.vcf -o mills.merged.vcf
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<div class="mw-collapsible-content">
 +
  usage : vt mergedups [options] <in.vcf>
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 +
  options : -o  output VCF file [-]
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            -p  merge by position [false]
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</div>
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</div>
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=== Genotype ===
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<div class=" mw-collapsible mw-collapsed">
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Merges duplicate variants by position with the option of considering alleles.  (This just discards the duplicate variant that appears later in the VCF file)
 +
<div class="mw-collapsible-content">
 +
</div>
 +
</div>
 +
 +
<div class=" mw-collapsible mw-collapsed">
 +
  #merge duplicate variants and save output in mills.merged.vcf
 +
  vt mergedups mills.vcf -o mills.merged.vcf
 +
<div class="mw-collapsible-content">
 +
  usage : vt mergedups [options] <in.vcf>
 +
 +
  options : -o  output VCF file [-]
 +
            -p  merge by position [false]
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</div>
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</div>
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=== View ===
     
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