fastaq_search_for_seq1
Overview
fastaq_search_for_seq [options] <fasta/q in> <outfile> <search_string>
Searches for an exact match on a given string and its reverese complement, in every sequences of a fasta/q file. Case insensitive. Guaranteed to find all hits
positional arguments:
infile
|
Name of input fasta/q file |
|---|---|
outfile
|
Name of outputfile. Tab-delimited output: sequence name, position, strand |
search_string
|
String to search for in the sequences |
optional arguments:
-
-h, --help -
show this help message and exit
Copying
Wellcome Trust Sanger Institute Copyright © 2013 Wellcome Trust Sanger Institute This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 3 of the License, or (at your option) any later version.