/ 
bioperl-run-1.5.2_005-RC
/ Bio::Tools::Run::Prints

NAME

Bio::Tools::Run::Prints

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

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/

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, obtiained 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    :