NAME

       fastq-clipper - ea-utils: removes one or more adapter sequences from the fastq file

DESCRIPTION

       usage: fastq-clipper [options] <fastq-file> <adapters>

       Removes one or more adapter sequences from the fastq file.  Adapter sequences are colon-delimited.  Stats
       go to stderr, unless -o is specified.

OPTIONS

       -h     This help

       -o FIL Output file (stats to stdout)

       -p N   Maximum difference percentage (10)

       -m N   Minimum clip length (1)

       -l N   Minimum remaining sequence length (15)

       -x [N] Extra match length past adapter length,

              N =-1 : search all N = 0 : search only up to adapter length

       -e     End-of-line (default)

       -b     Beginning-of-line (not supported yet)

fastq-clipper 1.1.2                                 July 2015                                   FASTQ-CLIPPER(1)