This is the command fastaq-scaffolds_to_contigs that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
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
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