Search results for "Bio::Tree::Tree"
Bio::Tree::Tree - An implementation of the TreeI interface.
This object holds handles to Nodes which make up a tree....
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC - Search in distribution- Bio::Tree::Node - A Simple Tree Node
- Bio::Tree::NodeI - Interface describing a Tree Node
- Bio::Tree::TreeI - A Tree object suitable for lots of things, designed originally for Phylogenetic Trees.
- 43 more results from BioPerl »
FAST::Bio::Tree::Tree - An Implementation of TreeI interface.
This object holds handles to Nodes which make up a tree....
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC - Search in distribution- FAST::Bio::Tree::Node - A Simple Tree Node
- FAST::Bio::Tree::TreeI - A Tree object suitable for lots of things, designed originally for Phylogenetic Trees.
- FAST::Bio::Tree::NodeI - Interface describing a Tree Node
- 17 more results from FAST »
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 - Search in distribution- tree2nex.pl - translate a tree in DND or phylip format into NEXUS TREES block
- nex2text_tree.pl - Trees as strings
- Tutorial - Hands-on tutorial for using Bio::NEXUS module.
- 6 more results from Bio-NEXUS »
Bio::MUST::Core::Tree - Thin wrapper around Bio::Phylo trees
# TODO...
DBAURAIN/Bio-MUST-Core-0.240390 - 08 Feb 2024 21:02:36 UTC - Search in distribution- Bio::MUST::Core::Tree::Forest - Collection of (bootstrap) trees
- tree2tpl.pl - Convert trees to TPL files
- tree2list.pl - Generate id lists from tree tips
- 2 more results from Bio-MUST-Core »
Bio::Phylo::Forest::Tree - Phylogenetic tree
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 UTC - Search in distribution- Bio::Phylo::Forest::TreeRole - Extra behaviours for a phylogenetic tree
- Bio::Phylo::Forest::DrawTreeRole - Tree with extra methods for tree drawing
- Bio::Phylo::Forest - Container for tree objects
- 45 more results from Bio-Phylo »
Bio::Tree::Draw::Cladogram - Drawing phylogenetic trees in Encapsulated PostScript (EPS) format.
Bio::Tree::Draw::Cladogram is a Perl tool for drawing Bio::Tree::Tree objects in Encapsulated PostScript (EPS) format. It can be utilized both for displaying a single phylogenetic tree (a cladogram) and for the comparative display of two phylogenetic...
CJFIELDS/Bio-Tree-Draw-Cladogram-1.7.3 - 25 Sep 2018 01:26:07 UTC - Search in distribution
lib/Bio/PhyloXS/Forest/Tree.pm
RVOSA/Bio-PhyloXS-v0.1.0
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13 Oct 2017 10:29:06 UTC
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Bio::TreeIO::nexml - A TreeIO driver module for parsing NeXML tree files
This is a driver module for parsing tree data in a NeXML format. For more information on NeXML, visit <http://www.nexml.org>....
CJFIELDS/Bio-NeXMLIO-1.7.3 - 11 Sep 2018 18:47:25 UTC - Search in distribution- Bio::NexmlIO - stream handler for NeXML documents
- Bio::Nexml::Factory - A factory module for creating BioPerl and Bio::Phylo objects from/to nexml documents
Bio::TreeIO::svggraph - A simple output format that converts a Tree object to an SVG output
This outputs a tree as an SVG graphic using the SVG::Graph API...
CJFIELDS/Bio-TreeIO-svggraph-1.7.3 - 25 Sep 2018 01:27:35 UTC - Search in distribution
Bio::Phylo::Forest::DBTree - Phylogenetic database as a tree object
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 UTC - Search in distribution- Bio::Phylo::Forest::DBTree::Result::Node - Phylogenetic database record as a node object
- megatree-loader - Loads a Newick tree into a database or a spreadsheet
- megatree-pruner - Given a list of taxa, returns subtree from a database
- 2 more results from Bio-Phylo-Forest-DBTree »
Bio::GeneDesign::PrefixTree - A suffix tree implementation for nucleotide searching
GeneDesign uses this object to parse peptide sequences for restriction enzyme recognition site possibilities...
NOTDOCTOR/Bio-GeneDesign-5.56 - 19 Jun 2020 16:50:54 UTC - Search in distribution
Bio::MUST::Tools::TreeParsing - Scripts for parsing trees
Scripts for parsing (and splitting) phylogenetic trees. More details can be found in Van Vlierberghe et al. (2021) Broadly sampled orthologous groups of eukaryotic proteins for the phylogenetic study of plastid-bearing lineages (submitted to BMC Rese...
DBAURAIN/Bio-MUST-Tools-TreeParsing-0.210200 - 20 Jan 2021 09:39:47 UTC - Search in distribution- tree-clan-splitter.pl - Extract clans (FASTA files) from trees based on taxonomic filters
Bio::PhyloNetwork::TreeFactory - Module to sequentially generate Phylogenetic Trees
Sequentially builds a (binary) phylogenetic tree each time next_network is called....
CJFIELDS/Bio-PhyloNetwork-1.7.3 - 25 Sep 2018 01:36:59 UTC - Search in distribution- Bio::PhyloNetwork::TreeFactoryX - Module to sequentially generate Phylogenetic Trees
- Bio::PhyloNetwork::TreeFactoryMulti - Module to sequentially generate Phylogenetic Trees
- Bio::PhyloNetwork - Module to compute with Phylogenetic Networks
- 3 more results from Bio-PhyloNetwork »
GOBO::Bridges::Bio::TreeBridge
CMUNGALL/GOBO-0.03
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17 Aug 2009 18:03:10 UTC
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Bio::BPWrapper::TreeManipulations - Functions for biotree
YZHERNAND/Bio-BPWrapper-1.15
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27 Feb 2024 16:55:31 UTC
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- biotree - Tree manipulations based on BioPerl
- bioaln - Alignment manipulations based on BioPerl
- Bio::BPWrapper - command-line utilities for Bio::Perl
Bio::Tools::Run::Phylo::FastTree
Get a Bio::Tree object given a protein or DNA alignment....
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC - Search in distribution- Bio::Tools::Run::Phylo::QuickTree - Wrapper for rapid reconstruction of phylogenies using QuickTree
- Bio::Tools::Run::Phylo::Phylip::DrawTree - use Phylip DrawTree program to draw trees
- tree_from_seqsearch - builds a phylogenetic tree based on a sequence search (FastA,BLAST,HMMER)
- 26 more results from BioPerl-Run »
lib/Bio/BioVeL/Service/NeXMLMerger/TreeReader.pm
RVOSA/Bio-BioVeL-0.1
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21 Mar 2014 10:32:41 UTC
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lib/Bio/Emboss/Methods.pm
PERNST/Bio-Emboss-5.0.0.1
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06 Sep 2007 16:28:46 UTC
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- Bio::Emboss - Write EMBOSS programs in Perl
Bio::LITE::Taxonomy - Lightweight and efficient taxonomic tree manager
This module provides easy and efficient access to different taxonomies (NCBI and RDP) with minimal dependencies and without intermediate databases. This module should be used through specific taxonomic interfaces (e.g. Bio::LITE::Taxonomy::NCBI or Bi...
MOTIF/Bio-LITE-Taxonomy-0.07 - 24 May 2011 11:20:38 UTC - Search in distribution
Dash - Analytical Web Apps in Perl (Port of Plotly's Dash to Perl)
This package is a port of Plotly's Dash <https://dash.plot.ly/> to Perl. Dash makes building analytical web applications very easy. No JavaScript required. It's a great way to put a nice interactive web interface to your data analysis application wit...
PABLROD/Dash-0.11 - 14 Aug 2022 14:02:57 UTC - Search in distribution