table of contents
| Bio::Tools::Run::Prints(3pm) | User Contributed Perl Documentation | Bio::Tools::Run::Prints(3pm) |
NAME¶
Bio::Tools::Run::Prints - PRINTS fingerprint identification algorithm
SYNOPSIS¶
Build a Prints factory
my @params = ('DB',$dbfile);
my $factory = Bio::Tools::Run::Prints->new($params);
# Pass the factory a Bio::Seq object
# @feats is an array of Bio::SeqFeature::Generic objects
my @feats = $factory->run($seq);
DESCRIPTION¶
FingerPRINTScan II is a PRINTS fingerprint identification algorithm. Copyright (C) 1998,1999 Phil Scordis
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://redmine.open-bio.org/projects/bioperl/
AUTHOR - Bala¶
Email savikalpa@fugu-sg.org
APPENDIX¶
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
program_name¶
Title : program_name Usage : $factory>program_name() Function: holds the program name Returns: string Args : None
program_dir¶
Title : program_dir Usage : $factory->program_dir(@params) Function: returns the program directory, obtained from ENV variable. Returns: string Args :
new¶
Title : new Usage : $prints->new(@params) Function: creates a new Prints factory Returns: Bio::Tools::Run::Prints Args :
predict_protein_features¶
Title : predict_protein_features() Usage : DEPRECATED. Use $obj->run($seqFile) instead. Function: Runs Prints and creates an array of featrues Returns : An array of Bio::SeqFeature::Generic objects Args : A Bio::PrimarySeqI
run¶
Title : run Usage : $obj->run($seq) Function: Runs Prints Returns : An array of Bio::SeqFeature::Generic objects Args : A Bio::PrimarySeqI, or a Fasta file name
_input¶
Title : _input Usage : obj->_input($seqFile) Function: Internal(not to be used directly) Returns : Args :
_run¶
Title : _run Usage : $obj->_run() Function: Internal(not to be used directly) Returns : An array of Bio::SeqFeature::Generic objects Args :
_writeSeqFile¶
Title : _writeSeqFile Usage : obj->_writeSeqFile($seq) Function: Internal(not to be used directly) Returns : Args :
| 2024-11-20 | perl v5.40.0 |