13 results (0.998 seconds)
Bio::Phylo - Phylogenetic analysis using perl 2 ++

This is the base class for the Bio::Phylo package for phylogenetic analysis using object-oriented perl5. In this file, methods are defined that are performed by other objects in the Bio::Phylo release that inherit from this base class (which you norm...

RVOSA/Bio-Phylo-0.58   (6 reviews) - 27 Mar 2014 15:27:48 GMT - Search in distribution

Bio::Phylo::Beagle - Perl wrapper around BEAGLE ++

This is a wrapper around the Beagle library (<http://dx.doi.org/10.1093/sysbio/syr100>) that accepts Bio::Phylo objects to simplify data handling. METHODS FACTORY METHODS create_instance() This function creates a single instance of the BEAGLE library...

RVOSA/Bio-Phylo-Beagle-0.03 - 04 Mar 2012 12:39:35 GMT - Search in distribution

Bio::Tools::Phylo::Gerp - Parses output from GERP 11 ++

This module is used to parse the output from 'GERP' (v2) by Eugene Davydov (originally Gregory M. Cooper et al.). You can get details here: http://mendel.stanford.edu/sidowlab/ It works on the .elems files produced by gerpelem. Each result is a Bio::...

CJFIELDS/BioPerl-1.6.924 - 10 Jul 2014 20:22:23 GMT - Search in distribution

Bio::Gonzales::Phylo::Util - utility functions for phylogenetic analysis ++

SUBROUTINES $map_iterator = leaf_mapper($code_ref // $pattern_or_map // '%s09d') Example for a code reference: my $map; my $handler = sub { my ($id) = @_; return $map->{$id} // $id . '.NA'; }; my $map_iterator = leaf_mapper($handler); my $mapped_tree...

JWB/Bio-Gonzales-0.0547 - 05 May 2014 16:42:00 GMT - Search in distribution

Bundle::Bio::Phylo::PhyLoTA - Modules used in supersmart-phylota project ++

Modules used in supersmart-phylota project. ...

KARINILS/Bundle-Bio-Phylo-PhyLoTA-0.2 - 27 Sep 2012 13:18:41 GMT - Search in distribution

Bio::Tools::Run::Phylo::SLR - Wrapper around the SLR program ++

This is a wrapper around the SLR program. See http://www.ebi.ac.uk/goldman/SLR/ for more information. This module is more about generating the proper ctl file and will run the program in a separate temporary directory to avoid creating temp files all...

CJFIELDS/BioPerl-Run-1.006900 - 21 Apr 2011 16:23:41 GMT - Search in distribution

Bio::PhyloTastic - Perl clients for PhyloTastic ++

PhyloTastic (<http://phylotastic.org>) is community effort to develop interoperable tools for pruning and annotating phylogenetic megatrees. This package contributes to that effort by providing simple client access to web services that perform steps ...

RVOSA/Bio-PhyloTastic-0.2 - 11 Jun 2012 18:58:40 GMT - Search in distribution

Bio::Graphics::Glyph::phylo_align - The "phylogenetic alignment" glyph ++

This glyph draws a cladogram for any set of species along with their alignment data in relation to the reference species. At high magnification, base pair alignements will be displayed. At lower magnification, a conservation score plot will be drawn....

LDS/Bio-Graphics-2.37 - 03 Jul 2013 19:32:00 GMT - Search in distribution

Bio::EasyYang - A tiny interface for Bio::Tools::Run::Phylo::PAML::Yn00 module ++

This module is a simple function to execute the Yang algorithm easily. FUNCTIONS yang This function returns the results from Yang's calcs: Title : yang Usage : Bio::EasyYang->yang($alignment,$genetic_code) Function: Runs the Yang Algorithm easily Ret...

HVALVERDE/Bio-EasyYang-1 - 13 Nov 2012 10:46:20 GMT - Search in distribution


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   (1 review) - 10 Feb 2012 13:31:13 GMT - Search in distribution

Bio::NEXUS::Import - Extends Bio::NEXUS with parsers for file formats of popular phylogeny programs ++

A module that extends Bio::NEXUS with parsers for file formats of popular phylogeny programs. INTERFACE new Title : new Usage : Bio::NEXUS::Import->new($filename, $fileformat, $verbose); Function: If $filename is defined, then this function calls imp...

LIMAONE/Bio-NEXUS-Import-v0.2.0 - 03 Feb 2011 16:30:11 GMT - Search in distribution





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