From Genome Analysis Wiki
Jump to navigationJump to search
666 bytes added
, 08:30, 18 August 2016
Line 650: |
Line 650: |
| -i intervals [] | | -i intervals [] |
| -r reference sequence fasta file [] | | -r reference sequence fasta file [] |
| + | -? displays help |
| + | </div> |
| + | </div> |
| + | |
| + | === Extract INFO fields to a tab delimited file === |
| + | |
| + | Checks the following properties of a VCF file: |
| + | #order |
| + | #reference sequence consistency |
| + | |
| + | <div class=" mw-collapsible mw-collapsed"> |
| + | #validates lobstr.bcf |
| + | vt validate lobstr.bcf |
| + | |
| + | <div class="mw-collapsible-content"> |
| + | usage : vt info2tab [options] <in.vcf> |
| + | |
| + | options : -v print variant CHROM,POS,REF,ALT [false] |
| + | -d debug [false] |
| + | -f filter expression [] |
| + | -t list of info tags to be extracted [] |
| + | -o output tab delimited file [-] |
| + | -I file containing list of intervals [] |
| + | -i intervals [] |
| -? displays help | | -? displays help |
| </div> | | </div> |