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Bio::Seq::RichSeqI(3) User Contributed Perl DocumentationBio::Seq::RichSeqI(3)

NAME
       Bio::Seq::RichSeqI - interface for sequences from rich data sources,
       mostly databases

SYNOPSIS
	   @secondary	= $richseq->get_secondary_accessions;
	   $division	= $richseq->division;
	   $mol		= $richseq->molecule;
	   @dates	= $richseq->get_dates;
	   $seq_version = $richseq->seq_version;
	   $pid		= $richseq->pid;
	   @keywords	= $richseq->get_keywords;

DESCRIPTION
       This interface extends the Bio::SeqI interface to give additional
       functionality to sequences with richer data sources, in particular from
       database sequences (EMBL, GenBank and Swissprot).

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/

AUTHOR - Ewan Birney
       Email birney@ebi.ac.uk

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

   get_secondary_accessions
	Title	: get_secondary_accessions
	Usage	:
	Function: Get the secondary accessions for a sequence.

		  An implementation that allows modification of this array
		  property should provide the methods add_secondary_accession
		  and remove_secondary_accessions, with obvious purpose.

	Example :
	Returns : an array of strings
	Args	: none

   division
	Title	: division
	Usage	:
	Function: Get (and set, depending on the implementation) the divison for
		  a sequence.

		  Examples from GenBank are PLN (plants), PRI (primates), etc.
	Example :
	Returns : a string
	Args	:

   molecule
	Title	: molecule
	Usage	:
	Function: Get (and set, depending on the implementation) the molecule
		  type for the sequence.

		  This is not necessarily the same as Bio::PrimarySeqI::alphabet(),
		  because it is databank-specific.
	Example :
	Returns : a string
	Args	:

   pid
	Title	: pid
	Usage	:
	Function: Get (and set, depending on the implementation) the PID property
		  for the sequence.
	Example :
	Returns : a string
	Args	:

   get_dates
	Title	: get_dates
	Usage	:
	Function: Get (and set, depending on the implementation) the dates the
		  databank entry specified for the sequence

		  An implementation that allows modification of this array
		  property should provide the methods add_date and
		  remove_dates, with obvious purpose.

	Example :
	Returns : an array of strings
	Args	:

   seq_version
	Title	: seq_version
	Usage	:
	Function: Get (and set, depending on the implementation) the version string
		  of the sequence.
	Example :
	Returns : a string
	Args	:

   get_keywords
	Title	: get_keywords
	Usage	: $obj->get_keywords()
	Function: Get the keywords for this sequence object.

		  An implementation that allows modification of this array
		  property should provide the methods add_keyword and
		  remove_keywords, with obvious purpose.

	Returns : an array of strings
	Args	:

perl v5.14.1			  2011-07-22		 Bio::Seq::RichSeqI(3)
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