Bio::Seq::RichSeqI - interface for sequences from rich data sources, mostly databases @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; 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).

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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 email or the web: bioperl-bugs@bio.perl.org http://bugzilla.bioperl.org/ Email birney@ebi.ac.uk Describe contact details here 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 :