Bio::SSRTool - The great new Bio::SSRTool!
Examines FASTA-formatted sequence data for simple sequence repeats (SSRs).
use Bio::SSRTool;
my $ssr_tool = Bio::SSRTool->new(); my @ssrs = $ssr_tool->find_ssr( $seq, { min_repeats => 10 } );
Or:
use Bio::SSRTool 'find_ssr'; my @ssrs = find_ssr( $fh, { motif_length => 'trimer' } );
The "find_ssr" routine expects a sequence string in FASTA format (or a filehandle to read a FASTA file) and an optional hash-ref of arguments including:
A positive integer
A positive integer between 1 and 10. Default is 4.
Ken Youens-Clark, <kclark at cpan.org>
<kclark at cpan.org>
Please report any bugs or feature requests to bug-bio-ssrtool at rt.cpan.org, or through the web interface at http://rt.cpan.org/NoAuth/ReportBug.html?Queue=Bio-SSRTool. I will be notified, and then you'll automatically be notified of progress on your bug as I make changes.
bug-bio-ssrtool at rt.cpan.org
You can find documentation for this module with the perldoc command.
perldoc Bio::SSRTool
RT: CPAN's request tracker (report bugs here)
http://rt.cpan.org/NoAuth/Bugs.html?Dist=Bio-SSRTool
AnnoCPAN: Annotated CPAN documentation
http://annocpan.org/dist/Bio-SSRTool
CPAN Ratings
http://cpanratings.perl.org/d/Bio-SSRTool
Search CPAN
http://search.cpan.org/dist/Bio-SSRTool/
This was originally written in 1999 by Sam Cartinhour. Thanks to Jim Thomason for code review.
Copyright 2012 Ken Youens-Clark.
This program is released under the following license: GPL
To install Bio::SSRTool, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::SSRTool
CPAN shell
perl -MCPAN -e shell install Bio::SSRTool
For more information on module installation, please visit the detailed CPAN module installation guide.