Man pages sections > man1 > fastaq-trim_contigs

fastaq_trim_contigs - Trims a set number of bases off the end of every contig

FASTAQ-TRIM_CONTIGS(1) User Commands FASTAQ-TRIM_CONTIGS(1)

NAME

fastaq_trim_contigs - Trims a set number of bases off the end of every contig

DESCRIPTION

usage: fastaq_trim_contigs [options] <infile> <outfile>
Trims a set number of bases off the end of every contig, so gaps get bigger and contig ends are removed. Bases are replaced with Ns. Any sequence that ends up as all Ns is lost

positional arguments:

infile
Name of input file
outfile
Name of output file

optional arguments:

-h, --help
show this help message and exit
--trim_number TRIM_NUMBER
Number of bases to trim around each gap, and off ends of each sequence [100]
June 2017 fastaq 3.15.0