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FastaMask tool help

FastaMask (2025_12-175-gc2187ef59)

Mask regions in a FASTA file with N bases.

Note: does not update the MD5 checksums. Use FastaChecksumUpdate for that!

Mandatory parameters:
  -in <file>        Input FASTA file.
  -reg <file>       Input BED file with regions to mask.
  -out <file>       Output file.

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).

FastaMask changelog

FastaMask 2025_12-175-gc2187ef59

2024-08-17 Initial version.

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