NAME

Bio::Tools::Run::Cap3 - wrapper for CAP3

SYNOPSIS

# Build a Cap3 factory with an (optional) parameter list
my @params = ('y', '150');
my $factory = Bio::Tools::Run::Cap3->new(@params);

# Specify where CAP3 is installed, if not the default directory (/usr/local/bin):
$factory->program_dir('/opt/bio/bin');

# Pass the factory an input file name...
my $result = $factory->run($filename);

# or an array of Sequence objects
my $result = $factory->run(@seqs);

DESCRIPTION

Wrapper module for CAP3 program

FEEDBACK

Mailing Lists

User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to one of the Bioperl mailing lists. Your participation is much appreciated.

bioperl-l@bioperl.org                  - General discussion
http://bioperl.org/wiki/Mailing_lists  - About the mailing lists

Support

Please direct usage questions or support issues to the mailing list:

bioperl-l@bioperl.org

rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address it. Please include a thorough description of the problem with code and data examples if at all possible.

Reporting Bugs

Report bugs to the Bioperl bug tracking system to help us keep track the bugs and their resolution. Bug reports can be submitted via the web:

http://bugzilla.open-bio.org/

AUTHORS

Marc Logghe

APPENDIX

The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _