Bio::Seq::RichSeqI - RichSeq interface, mainly for database orientated sequences
@secondary = $richseq->get_secondary_accessions; $division = $richseq->division; $mol = $richseq->molecule; @dates = $richseq->get_dates; $seq_version = $richseq->seq_version; $pid = $richseq->pid;
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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The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : get_secondary_accessions Usage : Function: Get the secondary accessions for a sequence. Example : Returns : an array of strings Args : none
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 :
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::moltype(), because it is databank-specific. Example : Returns : a string Args :
Title : pid Usage : Function: Get (and set, depending on the implementation) the PID property for the sequence. Example : Returns : a string Args :
Title : get_dates Usage : Function: Get (and set, depending on the implementation) the dates the databank entry specified for the sequence Example : Returns : an array of strings Args :
Title : seq_version Usage : Function: Get (and set, depending on the implementation) the version string of the sequence. Example : Returns : a string Args :
To install Bio::Seq, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::Seq
CPAN shell
perl -MCPAN -e shell install Bio::Seq
For more information on module installation, please visit the detailed CPAN module installation guide.