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Bio::NEXUS::UnalignedBlock 0.67

  Date Added: October 22, 2010  |  Visits: 630

Bio::NEXUS::UnalignedBlock

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Bio::NEXUS::UnalignedBlock is a Perl module that represents an UNALIGNED block of a NEXUS file. SYNOPSIS if ( $type =~ /unaligned/i ) { $block_object = new Bio::NEXUS::UnalignedBlock($type, $block, $verbose); } This is a class representing an unaligned block in NEXUS file METHODS new Title : new Usage : block_object = new Bio::NEXUS::UnalignedBlock($block_type, $commands, $verbose, $taxlabels); Function: Creates a new Bio::NEXUS::UnalignedBlock object Returns : Bio::NEXUS::UnalignedBlock object Args : type (string), the commands/comments to parse (array ref), and a verbose flag (0 or 1) find_taxon Title : find_taxon Usage : my $is_taxon_present = $self->find_taxon($taxon_name); Function: Finds whether the input taxon name is present in the taxon label. Returns : 0 (not present) or 1 (if present). Args : taxon label (as string) set_format Title : set_format Usage : $block->set_format(%format); Function: set the format of the characters Returns : none Args : hash of format values get_format Title : get_format Usage : $block->get_format(); Function: Returns the format of the characters Returns : hash of format values Args : none set_otuset Title : set_otuset Usage : $block->set_otuset($otuset); Function: Set the otus Returns : none Args : TaxUnitSet object set_charstatelabels Title : set_charstatelabels Usage : $block->set_charstatelabels($labels); Function: Set the character names and states Returns : none Args : array of character states get_charstatelabels Title : get_charstatelabels Usage : $set->get_charstatelabels(); Function: Returns an array of character states Returns : character states Args : none get_ntax Title : get_ntax Usage : $block->get_ntax(); Function: Returns the number of taxa of the block Returns : # taxa Args : none rename_otus Title : rename_otus Usage : $block->rename_otus(%translation); Function: Renames all the OTUs to something else Returns : none Args : hash containing translation equals Name : equals Usage : $block->equals($another); Function: compare if two Bio::NEXUS::UnalignedBlock objects are equal Returns : boolean Args : a Bio::NEXUS::CharactersBlock object.

Requirements: No special requirements
Platforms: Linux
Keyword: Args Bionexusunalignedblock Block Format Libraries Nexus Perl Module Programming Returns Title Unalignedblock Usage
Users rating: 0/10

License: Freeware Size: 153.6 KB
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