Search results for "distribution:Bio-NEXUS Bio::Tree::Tree"
Bio::NEXUS::Tree - Provides functions for manipulating trees
Provides a few useful functions for trees....
ARLIN/Bio-NEXUS-0.78 - 10 Feb 2012 13:31:13 UTC
tree2nex.pl - translate a tree in DND or phylip format into NEXUS TREES block
Output the tree in <infile> in NEXUS format. This is currently implemented outside the NEXUS package. It should be re-implemented with NEXUS objects and with the capacity to output a TAXA block using the OTU list from TreesBlock->get_OTUlist. But som...
ARLIN/Bio-NEXUS-0.78 - 10 Feb 2012 13:31:13 UTC
nex2text_tree.pl - Trees as strings
nex2text_tree.pl prgram will read the given input NEXUS file and converts the newick tree in the TreesBlock as string....
ARLIN/Bio-NEXUS-0.78 - 10 Feb 2012 13:31:13 UTC
Tutorial - Hands-on tutorial for using Bio::NEXUS module.
Tutorial to get started using Bio::NEXUS module. INTRODUCTION The NEXUS file format standard of Maddison, et al. (1997) is designed to represent sets of data, including character data (e.g., molecular sequence alignments, morphological character sets...
ARLIN/Bio-NEXUS-0.78 - 10 Feb 2012 13:31:13 UTC
Bio::NEXUS - An object-oriented Perl Applications Programming Interface (API) for the NEXUS file format
This is the base class for the Bio::NEXUS package, providing an object-oriented API to the NEXUS file format of *Maddison, et al.*, 1997. This module provides methods to add/remove blocks, select blocks/trees/subtrees/OTUs/characters and so on. For a...
ARLIN/Bio-NEXUS-0.78 - 10 Feb 2012 13:31:13 UTC
Bio::NEXUS
This User Manual explains the motivation for developing the Bio::NEXUS library, the principles underlying its organization, and its use in developing software for evolutionary informatics. This manual also provides information on how to use two demon...
ARLIN/Bio-NEXUS-0.78 - 10 Feb 2012 13:31:13 UTC
Bio::NEXUS::Node - Provides functions for manipulating nodes in trees
Provides a few useful functions for nodes....
ARLIN/Bio-NEXUS-0.78 - 10 Feb 2012 13:31:13 UTC
Bio::NEXUS::TreesBlock - Represents TREES block of a NEXUS file
If a NEXUS block is a Trees Block, this module parses the block and stores the tree data....
ARLIN/Bio-NEXUS-0.78 - 10 Feb 2012 13:31:13 UTC
Bio::NEXUS::Tools::Modifier - NEXUS file content modifier ( exclude/select/rename options on OTUs).
This program provides several services in the manipulation of NEXUS files (selecting specific OTUs or tree nodes, combining files, renaming OTUs, etc....
ARLIN/Bio-NEXUS-0.78 - 10 Feb 2012 13:31:13 UTC
nextool.pl - Command-line NEXUS file manipulation tool
Command-line Bio::NEXUS manipulation program...
ARLIN/Bio-NEXUS-0.78 - 10 Feb 2012 13:31:13 UTC