NAME

CLIPSeqTools::PreprocessApp::trim_fastq - Trim N nucleotides from the start and/or end of FASTQ sequences.

SYNOPSIS

clipseqtools-preprocess trim_fastq [options/parameters]

DESCRIPTION

Trim the sequences in a fastq file. Removes N nucleotides from the start and/or end of each sequence.

OPTIONS

  Input.
    --fastq <Str>          FASTQ file with reads.
    --N_from_start <Int>   Number of nucleotides to trim from the start of
                           each sequence. [Default: 0]
    --N_from_end <Int>     Number of nucleotides to trim from the end of
                           each sequence. [Default: 0]

  Output
    --o_prefix <Str>       output path prefix. Script will create and add
                           extension to path. [Default: ./]

  Other options.
    -v --verbose           print progress lines and extra information.
    -h -? --usage --help   print help message