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Topic > Genetics > Phylogenetics

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12 projects in result set.

0. caper - Comparative Analysis package - The Comparative Analyses of Phylogenetics and Evolution in R (caper) package implements a range of methods for the comparative analysis of taxa including methods based on phylogenetic independent contrasts and phylogenetically corrected linear models.
Development Status : 5 - Production/Stable [Filter] Intended Audience : End Users/Desktop [Filter] License : OSI Approved : GNU General Public License (GPL) [Filter] Natural Language : English (Now Filtering) Operating System : OS Independent (Now Filtering) Programming Language : R [Filter] Topic : Genetics : Phylogenetics [Filter] Topic : Regression Models [Filter]	Activity Percentile: 0.00 Registered: 2011-01-14 11:43

1. BayesSDEmacroevolution - The purpose of this project is to provide a focus for developing methods for analysing biological macroevolution of traits, using nonGaussian diffusion stochastic differential equation models. We plan to take a Bayesian approach to the problem.
Development Status : 1 - Planning [Filter] Environment : Console (Text Based) [Filter] Natural Language : English (Now Filtering) Operating System : OS Independent (Now Filtering) Programming Language : R [Filter] Topic : Bayesian Statistics : Specific Model Fitting [Filter] Topic : Genetics : Phylogenetics [Filter]	Activity Percentile: 0.00 Registered: 2012-01-02 09:20

2. Continuous Character Transitions - maticce: Mapping Transitions In Continuous Character Evolution This project provides tools for an information-theoretic approach to estimating the probability of continuous character transitions on phylogenetic trees.
Development Status : 4 - Beta [Filter] Intended Audience : End Users/Desktop [Filter] License : OSI Approved : GNU General Public License (GPL) [Filter] Natural Language : English (Now Filtering) Operating System : OS Independent (Now Filtering) Programming Language : R [Filter] Topic : Bioinformatics [Filter] Topic : Genetics : Phylogenetics [Filter]	Activity Percentile: 0.00 Registered: 2008-11-07 19:39

3. phylobase - Defining the basic S4 classes and methods for representing and manipulating phylogenetic trees and data in R.
Development Status : 4 - Beta [Filter] Intended Audience : Developers [Filter] Intended Audience : End Users/Desktop [Filter] License : OSI Approved : GNU General Public License (GPL) [Filter] Natural Language : English (Now Filtering) Operating System : OS Independent (Now Filtering) Programming Language : R [Filter] Topic : Genetics : Phylogenetics [Filter]	Activity Percentile: 0.00 Registered: 2007-12-14 19:17

4. paleoPhylo - 'paleoPhylo' will contain tools to assess how speciation, extinction & character change contribute to biodiversity. Currently it features graphical tools to draw phylogenies with time axes and ancestors that persist after speciation.
Development Status : 4 - Beta [Filter] Intended Audience : End Users/Desktop [Filter] License : OSI Approved : GNU General Public License (GPL) [Filter] Natural Language : English (Now Filtering) Operating System : OS Independent (Now Filtering) Programming Language : R [Filter] Topic : Genetics : Phylogenetics [Filter]	Activity Percentile: 0.00 Registered: 2008-10-07 12:38

5. SPecies' LImits by Threshold Statistics - splits contains tools for delimiting species and automated taxonomy at many levels of biological organization (eg. DNA barcoding, morphometrics), top-down (merging phylogenetic and phylogeographic methods) and bottom-up (single samples into >1 groups). Newer versions of the package via the Project Home Page link below.

Development Status : 3 - Alpha [Filter]
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License : OSI Approved : GNU General Public License (GPL) [Filter]
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Programming Language : R [Filter]
Topic : Cluster Analysis : Other Cluster Algorithms [Filter]
Topic : Genetics : Phylogenetics [Filter]

Activity Percentile: 0.00

Registered: 2009-01-15 14:06

6. adephylo - The package 'adephylo' implements multivariate approaches for comparative data, i.e. data including one phylogeny and one or several traits.

Development Status : 4 - Beta [Filter]
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License : OSI Approved : GNU General Public License (GPL) [Filter]
Natural Language : English (Now Filtering)
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Programming Language : C/C\+\+ [Filter]
Programming Language : R [Filter]
Topic : Genetics : Phylogenetics [Filter]
Topic : Multivariate Statistics : Projection Methods [Filter]

Activity Percentile: 0.00

Registered: 2008-11-18 15:35

7. TreEvo - TreEvo (TREE + EVOlution) is a package for approximate Bayesian computation for comparative methods.

Development Status : 3 - Alpha [Filter]
Environment : Console (Text Based) [Filter]
Environment : Other Environment [Filter]
Intended Audience : End Users/Desktop [Filter]
License : OSI Approved : GNU General Public License (GPL) [Filter]
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Programming Language : R [Filter]
Topic : Bioinformatics [Filter]
Topic : Genetics : Phylogenetics [Filter]

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Registered: 2008-07-23 21:21

8. RMesquite - RMesquite establishes interoperability between Mesquite (http://mesquiteproject.org) and R. It exposes Mesquite methods transparently as R functions that consume and provide native R data types, and converts seamlessly between Java and R data types.

Development Status : 3 - Alpha [Filter]
Intended Audience : Developers [Filter]
Intended Audience : End Users/Desktop [Filter]
License : OSI Approved : GNU General Public License (GPL) [Filter]
Natural Language : English (Now Filtering)
Operating System : OS Independent (Now Filtering)
Programming Language : Java [Filter]
Programming Language : R [Filter]
Topic : Bioinformatics [Filter]
Topic : Genetics : Phylogenetics [Filter]
Topic : Multivariate Statistics [Filter]

Activity Percentile: 0.00

Registered: 2008-07-17 03:57

9. PhyloOrchard - This holds noteworthy chronograms. It serves as the tree store for the DateLife.org project but is available for anyone to use.
Development Status : 3 - Alpha [Filter] Intended Audience : End Users/Desktop [Filter] License : OSI Approved : GNU General Public License (GPL) [Filter] Natural Language : English (Now Filtering) Operating System : OS Independent (Now Filtering) Programming Language : R [Filter] Topic : Datasets [Filter] Topic : Genetics : Phylogenetics [Filter]	Activity Percentile: 0.00 Registered: 2011-09-17 01:58

10. Analysis of Independent Contrasts - The CAIC package provides methods for the comparative analysis of taxa using independent contrasts methods. It reimplements the methods of the CAIC and MacroCAIC programs will implement alternative methods such as those provided in LDAP.
Development Status : 3 - Alpha [Filter] Intended Audience : Developers [Filter] Intended Audience : End Users/Desktop [Filter] License : OSI Approved : GNU General Public License (GPL) [Filter] Natural Language : English (Now Filtering) Operating System : OS Independent (Now Filtering) Programming Language : R [Filter] Topic : Genetics : Phylogenetics [Filter]	Activity Percentile: 0.00 Registered: 2008-01-31 15:29

11. phrapl - Note: development of phrapl has moved to GitHub: https://github.com/bomeara/phrapl

Development Status : 3 - Alpha [Filter]
Environment : Console (Text Based) [Filter]
Intended Audience : Developers [Filter]
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License : OSI Approved : GNU General Public License (GPL) [Filter]
Natural Language : English (Now Filtering)
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Operating System : OS Independent (Now Filtering)
Programming Language : R [Filter]
Topic : Genetics : Phylogenetics [Filter]
Topic : Genetics : Population Genetics [Filter]

Activity Percentile: 0.00

Registered: 2011-06-14 14:51