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FASTAQ-SCAFFOLDS_TO_CONTIGS(1) User Commands FASTAQ-SCAFFOLDS_TO_CONTIGS(1)

NAME

fastaq_scaffolds_to_contigs - Creates a file of contigs from a file of scaffolds

DESCRIPTION

usage: fastaq_scaffolds_to_contigs [options] <infile> <outfile>

Creates a file of contigs from a file of scaffolds - i.e. breaks at every gap in the input

positional arguments:

infile
Name of input file
outfile
Name of output contigs file

optional arguments:

-h, --help
show this help message and exit
--number_contigs
Use this to enumerate contig names 1,2,3,... within each scaffold
April 2020 fastaq 3.17.0