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License > OSI Approved > GNU General Public License (GPL)

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16 projects in result set.

0. 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 [Filter] Programming Language : R [Filter] Topic : Bioinformatics [Filter] Topic : Genetics : Phylogenetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2008-11-07 19:39

1. OMearaLab - This project hosts scripts being developed by the O'Meara lab ( http://www.brianomeara.info ), typically for use in comparative methods. This is primarily an incubator for things in a raw state (before becoming projects of their own) or one-off scripts.
Development Status : 2 - Pre-Alpha [Filter] Intended Audience : Developers [Filter] License : OSI Approved : GNU General Public License (GPL) [Filter] Natural Language : English (Now Filtering) Programming Language : R [Filter] Topic : Genetics : Phylogenetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2011-01-12 20:42

2. 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]
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Programming Language : R [Filter]
Topic : Genetics : Phylogenetics (Now Filtering)
Topic : Genetics : Population Genetics [Filter]

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Registered: 2011-06-14 14:51

3. 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 [Filter] Programming Language : R [Filter] Topic : Genetics : Phylogenetics (Now Filtering) Topic : Regression Models [Filter]	Activity Percentile: 0.00 Registered: 2011-01-14 11:43

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

Development Status : 3 - Alpha [Filter]
Environment : Console (Text Based) [Filter]
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License : OSI Approved : GNU General Public License (GPL) [Filter]
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Registered: 2008-07-23 21:21

5. Models of trait macroevolution on trees - The motmot (models of trait macroevolution on trees) package provides methods for testing hypotheses about the tempo of trait evolution 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) Programming Language : R [Filter] Topic : Genetics : Phylogenetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2010-05-19 10:00

6. OUwie - Calculates and compares rate differences of continuous character evolution under Brownian motion and a new set of Ornstein-Uhlenbeck (OU) models that allow the strength of selection and drift to vary across selective regimes.

Development Status : 4 - Beta [Filter]
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Topic : Spatial Data & Statistics : Ecological Analysis [Filter]

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Registered: 2011-07-13 13:38

7. 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 [Filter] Programming Language : R [Filter] Topic : Genetics : Phylogenetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2008-01-31 15:29

8. 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 [Filter] Programming Language : R [Filter] Topic : Datasets [Filter] Topic : Genetics : Phylogenetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2011-09-17 01:58

9. 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]
Intended Audience : Developers [Filter]
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Topic : Genetics : Phylogenetics (Now Filtering)
Topic : Multivariate Statistics : Projection Methods [Filter]

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Registered: 2008-11-18 15:35

10. 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 [Filter] Programming Language : R [Filter] Topic : Genetics : Phylogenetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2007-12-14 19:17

11. Species identity and evolution in R - A suite of tools for investigating the evolution, variation and identification of species. Includes functions for DNA barcoding, and sliding window analyses.
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) Programming Language : R [Filter] Topic : Genetics : Phylogenetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2011-04-15 00:09

12. Phylobase Extension - This package provides classes and methods which help read/write/manipulate branch-annotated phylogenetic trees (SIMMAP-format) and supports for a few other extra phylogenetic tree features (like tree weight).

Development Status : 3 - Alpha [Filter]
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License : OSI Approved : GNU General Public License (GPL) [Filter]
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Registered: 2011-04-26 02:20

13. 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]
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License : OSI Approved : GNU General Public License (GPL) [Filter]
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Topic : Bioinformatics [Filter]
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Topic : Multivariate Statistics [Filter]

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Registered: 2008-07-17 03:57

14. 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 [Filter] Programming Language : R [Filter] Topic : Genetics : Phylogenetics (Now Filtering)	Activity Percentile: 0.00 Registered: 2008-10-07 12:38

15. 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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Topic : Cluster Analysis : Other Cluster Algorithms [Filter]
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Registered: 2009-01-15 14:06