phytools: Phylogenetic Tools for Comparative Biology (and Other Things)

Canonical link: https://rscholar.com/pkg/phytools

Liam J. Revell • View description and downloads View dependencies GitHub project

2011 Published

2.3-0 Version

0 Citations

1 Authors

Referenced by ⇅	Year
brranching: Fetch "Phylogenies" from Many Sources (Version 0.7.0)	2015
perfectphyloR: Reconstruct Perfect Phylogenies from DNA Sequence Data (Version 0.2.1)	2019
pirouette: Create a Bayesian Posterior from a Phylogeny (Version 1.6.9)	2022
Rarefy: Rarefaction Methods (Version 1.1.1)	2020
treeplyr: "dplyr" Functionality for Matched Tree and Data Objects (Version 0.1.10)	2016
bite: Bayesian Integrative Models of Trait Evolution (Version 0.3)	2020
datelife: Scientific Data on Time of Lineage Divergence for Your Taxa (Version 0.6.8)	2022
qlcData: Processing Data for Quantitative Language Comparison (Version 0.3)	2015
BAT: Biodiversity Assessment Tools (Version 2.9.6)	2014
Claddis: Measuring Morphological Diversity and Evolutionary Tempo (Version 0.7.0)	2015
DAISIE: Dynamical Assembly of Islands by Speciation, Immigration and Extinction (Version 4.4.1)	2015
DDD: Diversity-Dependent Diversification (Version 5.2.2)	2012
FishPhyloMaker: Phylogenies for a List of Finned-Ray Fishes (Version 0.2.0)	2021
GIFT: Access to the Global Inventory of Floras and Traits (GIFT) (Version 1.3.2)	2023
MonoPhy: Explore Monophyly of Taxonomic Groups in a Phylogeny (Version 1.3.2)	2015
OUwie: Analysis of Evolutionary Rates in an OU Framework (Version 2.10)	2011
PBD: Protracted Birth-Death Model of Diversification (Version 1.4)	2014
PhySortR: A Fast, Flexible Tool for Sorting Phylogenetic Trees (Version 1.0.8)	2015
PhylogeneticEM: Automatic Shift Detection using a Phylogenetic EM (Version 1.7.0)	2017
Platypus: Single-Cell Immune Repertoire and Gene Expression Analysis (Version 3.6.0)	2021
RNeXML: Semantically Rich I/O for the 'NeXML' Format (Version 2.4.11)	2014
RPANDA: Phylogenetic ANalyses of DiversificAtion (Version 2.3)	2014
RRphylo: Phylogenetic Ridge Regression Methods for Comparative Studies (Version 2.8.1)	2018
RevGadgets: Visualization and Post-Processing of 'RevBayes' Analyses (Version 1.2.1)	2021
Rphylopars: Phylogenetic Comparative Tools for Missing Data and Within-Species Variation (Version 0.3.10)	2015
Rtapas: Random Tanglegram Partitions (Version 1.2)	2022
TML: Tropical Geometry Tools for Machine Learning (Version 2.3.0)	2023
adiv: Analysis of Diversity (Version 2.2.1)	2017
arakno: ARAchnid KNowledge Online (Version 1.3.0)	2021
avotrex: A Global Dataset of Anthropogenic Extinct Birds and their Traits: Phylogeny Builder (Version 1.3.0)	2024
convevol: Analysis of Convergent Evolution (Version 2.2.1)	2013
corHMM: Hidden Markov Models of Character Evolution (Version 2.8)	2013
ctpm: Continuous-Time Phylogenetic Modeling (Version 1.0.1)	2021
deeptime: Plotting Tools for Anyone Working in Deep Time (Version 2.1.0)	2021
do3PCA: Probabilistic Phylogenetic Principal Component Analysis (Version 1.0.0)	2024
evobiR: Comparative and Population Genetic Analyses (Version 1.1)	2013
fishtree: Interface to the Fish Tree of Life API (Version 0.3.4)	2018
funspace: Creating and Representing Functional Trait Spaces (Version 0.2.2)	2023
geiger: Analysis of Evolutionary Diversification (Version 2.0.11)	2007
hisse: Hidden State Speciation and Extinction (Version 2.1.11)	2015
holobiont: Microbiome Analysis Tools (Version 0.1.2)	2024
idiogramFISH: Shiny App. Idiograms with Marks and Karyotype Indices (Version 2.0.13)	2019
learnPopGen: Population Genetic Simulations & Numerical Analysis (Version 1.0.4)	2018
mvMORPH: Multivariate Comparative Tools for Fitting Evolutionary Models to Morphometric Data (Version 1.2.1)	2013
nichevol: Tools for Ecological Niche Evolution Assessment Considering Uncertainty (Version 0.1.20)	2020
ontophylo: Ontology-Informed Phylogenetic Comparative Analyses (Version 1.1.3)	2023
orthGS: Orthology vs Paralogy Relationships among Glutamine Synthetase from Plants (Version 0.1.5)	2024
palaeoverse: Prepare and Explore Data for Palaeobiological Analyses (Version 1.4.0)	2022
paleotree: Paleontological and Phylogenetic Analyses of Evolution (Version 3.4.7)	2012
pez: Phylogenetics for the Environmental Sciences (Version 1.2-4)	2014
phylopairs: Comparative Analyses of Lineage-Pair Traits (Version 0.1.0)	2024
phylosem: Phylogenetic Structural Equation Model (Version 1.1.4)	2023
pmc: Phylogenetic Monte Carlo (Version 1.0.6)	2012
poweRbal: Phylogenetic Tree Models and the Power of Tree Shape Statistics (Version 0.0.1.1)	2024
ppgm: PaleoPhyloGeographic Modeling of Climate Niches and Species Distributions (Version 1.0.3)	2024
ratematrix: Bayesian Estimation of the Evolutionary Rate Matrix (Version 1.2.4)	2018
recluster: Ordination Methods for the Analysis of Beta-Diversity Indices (Version 2.9)	2013
rhierbaps: Clustering Genetic Sequence Data Using the HierBAPS Algorithm (Version 1.1.4)	2018
rphylopic: Get Silhouettes of Organisms from PhyloPic (Version 1.5.0)	2018
secsse: Several Examined and Concealed States-Dependent Speciation and Extinction (Version 3.1.0)	2019
sensiPhy: Sensitivity Analysis for Comparative Methods (Version 0.8.5)	2016
surface: Fitting Hansen Models to Investigate Convergent Evolution (Version 0.6)	2013
tapnet: Trait Matching and Abundance for Predicting Bipartite Networks (Version 0.3)	2021
treespace: Statistical Exploration of Landscapes of Phylogenetic Trees (Version 1.1.4.3)	2017
treestartr: Generate Starting Trees for Combined Molecular, Morphological and Stratigraphic Data (Version 0.1.0)	2019
windex: Analysing Convergent Evolution using the Wheatsheaf Index (Version 2.0.8)	2014

RPKG Scholar presents a tabulation of an author's contribution in the development of R packages stored in the Comprehensive R Archive Network (CRAN). Within this site, we consider package dependencies (suggests,imports,depends,enhances) as citations because we believe that using one's package to develop another is tantamount to citing the author of the package being imported, suggested or enhanced.