Forest - A collection of n-ary tree related modules River stage two • 5 direct dependents • 19 total dependents

Forest is intended to be a replacement for the Tree::Simple family of modules, and fixes many of the issues that have always bothered me about them. It is by no means a complete replacement yet, but should eventually grow to become that. For more inf...

STEVAN/Forest-0.10 - 18 Dec 2013 13:24:16 GMT

Forest::Tree - An n-ary tree River stage two • 5 direct dependents • 19 total dependents

This module is a basic n-ary tree, it provides most of the functionality of Tree::Simple, whatever is missing will be added eventually. This class inherits from Forest::Tree::Pure>, but all shared methods and attributes are documented in both classes...

STEVAN/Forest-0.10 - 18 Dec 2013 13:24:16 GMT

Bio::Phylo::Forest - Container for tree objects River stage two • 8 direct dependents • 12 total dependents

The Bio::Phylo::Forest object models a set of trees. The object subclasses the Bio::Phylo::Listable object, so look there for more methods available to forest objects....

RVOSA/Bio-Phylo-v2.0.1 - 30 Oct 2017 19:50:35 GMT

Forest::Tree::Pure - An n-ary tree River stage two • 5 direct dependents • 19 total dependents

This module is a base class for Forest::Tree providing functionality for immutable trees. It can be used independently for trees that require sharing of children between parents. There is no single authoritative parent (no upward links at all), and c...

STEVAN/Forest-0.10 - 18 Dec 2013 13:24:16 GMT

Forest::Tree::Writer - An abstract role for tree writers River stage two • 5 direct dependents • 19 total dependents

This is an abstract role for tree writers....

STEVAN/Forest-0.10 - 18 Dec 2013 13:24:16 GMT

Forest::Tree::Reader - An abstract role for top down tree reader River stage two • 5 direct dependents • 19 total dependents

This role should generally not be used, it has been largely superseded by Forest::Tree::Builder. This is an abstract role for tree readers. Tree readers are also Tree loaders, that is why this module also does the Forest::Tree::Loader role....

STEVAN/Forest-0.10 - 18 Dec 2013 13:24:16 GMT

Forest::Tree::Loader - An abstract role for loading trees River stage two • 5 direct dependents • 19 total dependents

This role should generally not be used, it has been largely superseded by Forest::Tree::Builder. This is an abstract role to be used for loading trees from...

STEVAN/Forest-0.10 - 18 Dec 2013 13:24:16 GMT

Forest::Tree::Indexer - An abstract role for tree indexers River stage two • 5 direct dependents • 19 total dependents

This is an abstract role for tree writers....

STEVAN/Forest-0.10 - 18 Dec 2013 13:24:16 GMT

Forest::Tree::Builder - An abstract role for bottom up tree reader River stage two • 5 direct dependents • 19 total dependents

Forest::Tree::Builder replaces Forest::Tree::Loader and Forest::Tree::Reader with a bottom up construction approach, which is also suitable for constructing Forest::Tree::Pure derived trees without excessive cloning. It provides a declarative API ins...

STEVAN/Forest-0.10 - 18 Dec 2013 13:24:16 GMT

Bio::Phylo::Forest::Node - Node in a phylogenetic tree River stage two • 8 direct dependents • 12 total dependents

This module has the getters and setters that alter the state of a node object. Useful behaviours (which are also available) are defined in the Bio::Phylo::Forest::NodeRole package....

RVOSA/Bio-Phylo-v2.0.1 - 30 Oct 2017 19:50:35 GMT

Bio::Phylo::Forest::Tree - Phylogenetic tree River stage two • 8 direct dependents • 12 total dependents

The package has the getters and setters that alter the internal state of a tree object. Additional tree-related behaviours (which are available also) are defined in the package Bio::Phylo::Forest::TreeRole....

RVOSA/Bio-Phylo-v2.0.1 - 30 Oct 2017 19:50:35 GMT

Forest::Tree::Constructor - An abstract role for tree factories River stage two • 5 direct dependents • 19 total dependents

This role provides the "create_new_subtree" method as required by Forest::Tree::Builder and Forest::Tree::Loader/Forest::Tree::Reader. See Forest::Tree::Builder for the reccomended usage....

STEVAN/Forest-0.10 - 18 Dec 2013 13:24:16 GMT

lib/Bio/PhyloXS/Forest/Node.pm River stage zero No dependents

RVOSA/Bio-PhyloXS-v0.1.0 - 13 Oct 2017 10:29:06 GMT

lib/Bio/PhyloXS/Forest/Tree.pm River stage zero No dependents

RVOSA/Bio-PhyloXS-v0.1.0 - 13 Oct 2017 10:29:06 GMT

Forest::Tree::Viewer::Gtk2 - a simple Gtk2 using tree viewer River stage zero No dependents

PMURIAS/Forest-Tree-Viewer-Gtk2-0.03 - 16 Aug 2010 07:26:43 GMT

Bio::Phylo::Forest::DBTree - Phylogenetic database as a tree object River stage zero No dependents

This package provides the functionality to handle very large phylogenies (examples: the NCBI taxonomy, the Green Genes tree) as if they are Bio::Phylo tree objects, with all the possibilities for traversal, computation, serialization, and visualizati...

RVOSA/Bio-Phylo-Forest-DBTree-v0.1.2 - 24 Oct 2017 14:06:26 GMT

lib/Test/Smoke/Syncer/Forest.pm River stage zero No dependents

ABELTJE/Test-Smoke-1.74 - 09 Feb 2020 15:39:55 GMT

Bio::Phylo::Forest::NodeRole - Extra behaviours for a node in a phylogenetic tree River stage two • 8 direct dependents • 12 total dependents

This module defines a node object and its methods. The node is fairly syntactically rich in terms of navigation, and additional getters are provided to further ease navigation from node to node. Typical first daughter -> next sister traversal and rec...

RVOSA/Bio-Phylo-v2.0.1 - 30 Oct 2017 19:50:35 GMT

Bio::Phylo::Forest::TreeRole - Extra behaviours for a phylogenetic tree River stage two • 8 direct dependents • 12 total dependents

The object models a phylogenetic tree, a container of Bio::Phylo::Forest::Node objects. The tree object inherits from Bio::Phylo::Listable, so look there for more methods....

RVOSA/Bio-Phylo-v2.0.1 - 30 Oct 2017 19:50:35 GMT

Forest::Tree::Roles::MetaData - A role mixin to support tree node metadata River stage two • 5 direct dependents • 19 total dependents

This role mixin adds support for each tree node to have arbitrary metadata stored in a HASHref. The metadata is inherited in the tree as well, so a child will inherit the parents metadata. This is really useful, at least for me it is :)...

STEVAN/Forest-0.10 - 18 Dec 2013 13:24:16 GMT

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