bio::tools::primer::assessori(3pm) [debian man page]
Bio::Tools::Primer::AssessorI(3pm) User Contributed Perl Documentation Bio::Tools::Primer::AssessorI(3pm)NAME
Bio::Tools::Primer::AssessorI - interface for assessing primer pairs
SYNOPSIS
use Bio::Tools::Primer::AssessorI;
if( $obj->isa('Bio::Tools::Primer::AssessorI') ) {
my $score = $obj->assess($primer_pair);
}
DESCRIPTION
The Primer Assessor interface provides a interface for scoring functions of primer pairs to comply to. It is mainly used by
Bio::Tools::Primer::Design module
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 the
Bioperl mailing list. 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 of the bugs and their resolution. Bug reports can be submitted via the
web:
https://redmine.open-bio.org/projects/bioperl/
AUTHOR - Ewan Birney
Email birney-at-ebi.ac.uk
APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
perl v5.14.2 2012-03-02 Bio::Tools::Primer::AssessorI(3pm)
Check Out this Related Man Page
Bio::Tools::RepeatMasker(3pm) User Contributed Perl Documentation Bio::Tools::RepeatMasker(3pm)NAME
Bio::Tools::RepeatMasker - a parser for RepeatMasker output
SYNOPSIS
use Bio::Tools::RepeatMasker;
my $parser = Bio::Tools::RepeatMasker->new(-file => 'seq.fa.out');
while( my $result = $parser->next_result ) {
# get some value
}
DESCRIPTION
A parser for RepeatMasker output
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 the
Bioperl mailing list. 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 of the bugs and their resolution. Bug reports can be submitted via the
web:
https://redmine.open-bio.org/projects/bioperl/
AUTHOR - Shawn Hoon
Email shawnh@fugu-sg.org
APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
new
Title : new
Usage : my $obj = Bio::Tools::RepeatMasker->new();
Function: Builds a new Bio::Tools::RepeatMasker object
Returns : Bio::Tools::RepeatMasker
Args : -fh/-file => $val, for initing input, see Bio::Root::IO
next_result
Title : next_result
Usage : my $r = $rpt_masker->next_result
Function: Get the next result set from parser data
Returns : Bio::SeqFeature::FeaturePair
Feature1 is the Query coordinates and Feature2 is the Hit
Args : none
perl v5.14.2 2012-03-02 Bio::Tools::RepeatMasker(3pm)
OIOIC is a completely new object-oriented mechanism for the C programming language.
Please download the "OIOIC-Primer-2nd-Edition-English.tar.gz". (the English version of << OIOIC Primer >> )
http://code.google.com/p/oioic/downloads/list
Welcome your advice!
Using OIOIC, you can describe... (7 Replies)
Background:
I have a file of thousands of potential SSR primers from Batch Primer 3.
I can't use primers that will contain the same sequence ID or sequence as another primer.
I have some basic shell scripting skills, but not enough to handle this.
What you need to know:
I need to remove the... (1 Reply)