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VcfToBedpe tool help

VcfToBedpe (2024_08-113-g94a3b440)

Converts a VCF file containing structural variants to BEDPE format.

Input can be MANTA oder DELLY VCF files.

Mandatory parameters:
  -in <file>        Input structural variant list in VCF format.
  -out <file>       Output structural variant list in BEDPE format.

Optional parameters:
  -no_sort          Do not sort results
                    Default value: 'false'

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).

VcfToBedpe changelog

VcfToBedpe 2024_08-113-g94a3b440

2023-03-23 Added support for Sniffles, cuteSV and dipdiff

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