Bio::Search::HSP::PSLHSP man page on Fedora

Man page or keyword search:  
man Server   31170 pages
apropos Keyword Search (all sections)
Output format
Fedora logo
[printable version]

Bio::Search::HSP::PSLHUser)Contributed Perl DocumenBio::Search::HSP::PSLHSP(3)

NAME
       Bio::Search::HSP::PSLHSP - A HSP for PSL output

SYNOPSIS
	 # get a PSLHSP somehow (SearchIO::psl)

DESCRIPTION
       This is a HSP for PSL output so we can handle seq_inds differently.

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:

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

AUTHOR - Jason Stajich
       Email jason-at-bioperl-dot-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::Search::HSP::PSLHSP->new();
	Function: Builds a new Bio::Search::HSP::PSLHSP object
	Returns : an instance of Bio::Search::HSP::PSLHSP
	Args	: -gapblocks => arrayref of gap locations which are [start,length]
				of gaps

   gap_blocks
	Title	: gap_blocks
	Usage	: $obj->gap_blocks($seqtype,$blocks)
	Function: Get/Set the gap blocks
	Returns : value of gap_blocks (a scalar)
	Args	: sequence type - 'query' or 'hit'
		  blocks - arrayref of block start,length

   mismatches
	Title	: mismatches
	Usage	: $obj->mismatches($newval)
	Function: Get/Set the number of mismatches
	Returns : value of mismatches (a scalar)
	Args	: on set, new value (a scalar or undef, optional)

perl v5.14.1			  2011-07-22	   Bio::Search::HSP::PSLHSP(3)
[top]

List of man pages available for Fedora

Copyright (c) for man pages and the logo by the respective OS vendor.

For those who want to learn more, the polarhome community provides shell access and support.

[legal] [privacy] [GNU] [policy] [cookies] [netiquette] [sponsors] [FAQ]
Tweet
Polarhome, production since 1999.
Member of Polarhome portal.
Based on Fawad Halim's script.
....................................................................
Vote for polarhome
Free Shell Accounts :: the biggest list on the net