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FastqTrim tool help

FastqTrim (2023_03-107-g2a1d2478)

Trims start/end bases from all reads in a FASTQ file.

Mandatory parameters:
  -in <file>               Input gzipped FASTQ file.
  -out <file>              Output gzipped FASTQ file.

Optional parameters:
  -start <int>             Trim this number of bases from the start of the read.
                           Default value: '0'
  -end <int>               Trim this number of bases from the end of the read.
                           Default value: '0'
  -len <int>               Restrict read length to this value (after trimming from start/end).
                           Default value: '0'
  -compression_level <int> Output FASTQ compression level from 1 (fastest) to 9 (best compression).
                           Default value: '1'
  -long_read               Support long reads (> 1kb).
                           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'.

FastqTrim changelog

FastqTrim 2023_03-107-g2a1d2478

2023-06-15 Added support for long reads.
2020-07-15 Added 'compression_level' parameter.
2016-08-26 Added 'len' parameter.

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