NAME

       vcf-stats - statistic of VCF file

SYNOPSIS

       vcf-stats [OPTIONS] file.vcf.gz

OPTIONS

       -d, --dump <file>
              Take an existing dump file and recreate the files (works with -p)

       -f, --filters <filter1,filter2>
              List   of   filters   such   as   column/field   (any  value),  column/field=bin:max  (cluster  in
              bins),column/field=value (exact value)

       -p, --prefix <dir/string>
              Prefix of output files. If slashes are present, directories will be created.

       -s, --samples <list>
              Process only the listed samples, - for none. Excluding unwanted samples may  increase  performance
              considerably.

       -h, -?, --help
              This help message.

EXAMPLES

              # Calculate stats separately for the filter field, quality and non-indels vcf-stats file.vcf.gz -f
              FILTER,QUAL=10:200,INFO/INDEL=False -p out/

              # Calculate stats for all samples vcf-stats file.vcf.gz -f FORMAT/DP=10:200 -p out/

              #  Calculate stats only for the sample NA00001 vcf-stats file.vcf.gz -f SAMPLE/NA00001/DP=1:200 -p
              out/

              vcf-stats file.vcf.gz > perl.dump

vcf-stats 0.1.5                                     July 2011                                       VCF-STATS(1)