Bio-NEXUS documentation

• Bio-NEXUS - README
• Bio-NEXUS - META.yml
• Bio-NEXUS Build.PL
• Bio-NEXUS Makefile.PL
• Bio::NEXUS - An object-oriented Perl Applications Programming Interface (API) for the NEXUS file format  [view source]
• Bio::NEXUS::AssumptionsBlock - Represents ASSUMPTIONS block of a NEXUS file  [view source]
• Bio::NEXUS::Block - Provides useful functions for blocks in NEXUS file (parent class).  [view source]
• Bio::NEXUS::CharactersBlock - Represents a CHARACTERS Block (Data or Characters) of a NEXUS file  [view source]
• Bio::NEXUS::CodonsBlock - Represents CODONS block in NEXUS file  [view source]
• Bio::NEXUS::DataBlock - Represents the deprecated DATA Block in NEXUS file.  [view source]
• Bio::NEXUS::DistancesBlock - Represents DISTANCES block in NEXUS file  [view source]
• Bio::NEXUS::Functions - Provides private utiliy functions for the module  [view source]
• Bio::NEXUS::HistoryBlock - Represents a HISTORY block of a NEXUS file  [view source]
• Bio::NEXUS::Matrix - Provides functions for handling blocks that have matrices  [view source]
• Bio::NEXUS::NHXCmd - Provides functions for manipulating nodes in trees  [view source]
• Bio::NEXUS::Node - Provides functions for manipulating nodes in trees  [view source]
• Bio::NEXUS::NotesBlock - Represents a NOTES block in a NEXUS file.  [view source]
• Bio::NEXUS::SetsBlock - Represents SETS block of a NEXUS file  [view source]
• Bio::NEXUS::SpanBlock - Represent SPAN block in a NEXUS file (contains meta data).  [view source]
• Bio::NEXUS::TaxaBlock - Represents TAXA block of a NEXUS file  [view source]
• Bio::NEXUS::TaxUnit - Represents a taxon unit in a NEXUS file  [view source]
• Bio::NEXUS::TaxUnitSet - Represents a sets of OTUS (Bio::NEXUS::TaxUnits objects) in a NEXUS file  [view source]
• Bio::NEXUS::Tools::Modifier - NEXUS file content modifier ( exclude/select/rename options on OTUs).  [view source]
• Bio::NEXUS::Tree - Provides functions for manipulating trees  [view source]
• Bio::NEXUS::TreesBlock - Represents TREES block of a NEXUS file  [view source]
• Bio::NEXUS::UnalignedBlock - Represents an UNALIGNED block of a NEXUS file  [view source]
• Bio::NEXUS::UnknownBlock - Represents a simple object for storing information unrecognized blocks by the Bio::NEXUS module.  [view source]
• Bio::NEXUS::Util::Exceptions - Exception classes for Bio::NEXUS.  [view source]
• Bio::NEXUS::Util::Logger - Logging for Bio::NEXUS.  [view source]
• Bio::NEXUS::WeightSet - Represents column weights in alignment ( for each character)  [view source]
• Graphics - represents a character block (Data or Characters) of a NEXUS file  [view source]
• Installation - Bio-NEXUS INSTALL  [view source]
• nexplot.pl - PostScript plot of tree + data table (from NEXUS infile)  [view source]
• Tutorial - Hands-on tutorial for using Bio::NEXUS module.  [view source]
• UserManual - UserManual documentation  [view source]