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VcfToTsv tool help

VcfToTsv (2024_08-113-g94a3b440)

Converts a VCF file to a tab-separated text file.

Multi-allelic variants are supported. All alternative sequences are stored as a comma-seperated list.
Multi-sample VCFs are supported. For every combination of FORMAT and SAMPLE a seperate column is generated and named in the following way: <SAMPLEID>_<FORMATID>_<format>.

Optional parameters:
  -in <file>        Input variant list in VCF format. If unset, reads from STDIN.
                    Default value: ''
  -out <file>       Output variant list in TSV format. If unset, writes to STDOUT.
                    Default value: ''

Special parameters:
  --help            Shows this help and exits.
  --version         Prints version and exits.
  --changelog       Prints changeloge and exits.
  --tdx             Writes a Tool Definition Xml file. The file name is the application name with the suffix '.tdx'.
  --settings [file] Settings override file (no other settings files are used).

VcfToTsv changelog

VcfToTsv 2024_08-113-g94a3b440

2022-11-03 Changed output variant style from GSvar to VCF.
2022-09-07 Added support for streaming (STDIN > STDOUT).
2020-08-07 Multi-allelic and multi-sample VCFs are supported.

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