Scroll to navigation

FASTAQ-TO_FASTA(1) User Commands FASTAQ-TO_FASTA(1)

NAME

fastaq_to_fasta - Converts a variety of input formats to nicely formatted FASTA format

DESCRIPTION

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

Converts a variety of input formats to nicely formatted FASTA format

positional arguments:

infile
Name of input file. Can be any of FASTA, FASTQ, GFF3, EMBL, GBK, Phylip
outfile
Name of output file

optional arguments:

-h, --help
show this help message and exit
-l LINE_LENGTH, --line_length LINE_LENGTH
Number of bases on each sequence line of output file. Set to zero for no linebreaks in sequences [60]
-s, --strip_after_whitespace
Remove everything after first whitespace in every sequence name
-u, --check_unique
Die if any of the output sequence names are not unique
April 2020 fastaq 3.17.0