RPANDA
type: Item
swMATH work ID: 26127
instance of: R package
software version identifier: 2.2
software version identifier: 1.0
software version identifier: 1.1
software version identifier: 1.2
software version identifier: 1.3
software version identifier: 1.4
software version identifier: 1.5
software version identifier: 1.6
software version identifier: 1.7
software version identifier: 1.8
software version identifier: 1.9
software version identifier: 2.0
software version identifier: 2.1
software version identifier: 2.3
CRAN project: RPANDA
programmed in: R
last update: 2024-02-21T00:00:00Z
description: Implements macroevolutionary analyses on phylogenetic trees. See Morlon et al. (2010) <doi:10.1371/journal.pbio.1000493>, Morlon et al. (2011) <doi:10.1073/pnas.1102543108>, Condamine et al. (2013) <doi:10.1111/ele.12062>, Morlon et al. (2014) <doi:10.1111/ele.12251>, Manceau et al. (2015) <doi:10.1111/ele.12415>, Lewitus & Morlon (2016) <doi:10.1093/sysbio/syv116>, Drury et al. (2016) <doi:10.1093/sysbio/syw020>, Manceau et al. (2016) <doi:10.1093/sysbio/syw115>, Morlon et al. (2016) <doi:10.1111/2041-210X.12526>, Clavel & Morlon (2017) <doi:10.1073/pnas.1606868114>, Drury et al. (2017) <doi:10.1093/sysbio/syx079>, Lewitus & Morlon (2017) <doi:10.1093/sysbio/syx095>, Drury et al. (2018) <doi:10.1371/journal.pbio.2003563>, Clavel et al. (2019) <doi:10.1093/sysbio/syy045>, Maliet et al. (2019) <doi:10.1038/s41559-019-0908-0>, Billaud et al. (2019) <doi:10.1093/sysbio/syz057>, Lewitus et al. (2019) <doi:10.1093/sysbio/syz061>, Aristide & Morlon (2019) <doi:10.1111/ele.13385>, Maliet et al. (2020) <doi:10.1111/ele.13592>, Drury et al. (2021) <doi:10.1371/journal.pbio.3001270>, Perez-Lamarque & Morlon (2022) <doi:10.1111/mec.16478>, Perez-Lamarque et al. (2022) <doi:10.1101/2021.08.30.458192>, Mazet et al. (2023) <doi:10.1111/2041-210X.14195>, Drury et al. (2024) <doi:10.1016/j.cub.2023.12.055>.
author: Eric Lewitus
author: Fabien L. Condamine
author: Marc Manceau
author: Julien Clavel
author: Jonathan P. Drury
author: Olivier Billaud
author: Odile Maliet
author: Leandro Aristide
author: Benoit Perez-Lamarque
author: Nathan Mazet
author: Hélène Morlon
copyright license: GNU General Public License, version 2.0
depends on software: ape
depends on software: picante
depends on software: methods
depends on software: R
imports: BB
imports: bipartite
imports: cluster
imports: coda
imports: deSolve
imports: fields
imports: fpc
imports: geiger
imports: glassoFast
imports: graphics
imports: grDevices
imports: igraph
imports: Matrix
imports: mvtnorm
imports: mvMORPH
imports: GUniFrac
imports: parallel
imports: ParallelLogger
imports: phangorn
imports: phytools
imports: pracma
imports: pspline
imports: pvclust
imports: raster
imports: RColorBrewer
imports: R.utils
imports: Rmpfr
imports: stats
imports: TESS
imports: utils
imports: vegan
cites work: Inferring the Dynamics of Diversification: A Coalescent Approach
cites work: Reconciling molecular phylogenies with the fossil record
cites work: Macroevolutionary perspectives to environmental change
cites work: Phylogenetic approaches for studying diversification
cites work: Phylogenies support out-of-equilibrium models of biodiversity
cites work: Characterizing and Comparing Phylogenies from their Laplacian Spectrum
cites work: Estimating the Effect of Competition on Trait Evolution Using Maximum Likelihood Inference
cites work: A unifying comparative phylogenetic framework including traits coevolving across interacting lineages
cites work: RPANDA : an R package for macroevolutionary analyses on phylogenetic trees
cites work: Accelerated body size evolution during cold climatic periods in the Cenozoic
cites work: An Assessment of Phylogenetic Tools for Analyzing the Interplay Between Interspecific Interactions and Phenotypic Evolution
cites work: Detecting Environment-Dependent Diversification From Phylogenies: A Simulation Study and Some Empirical Illustrations

RPANDA (cites work)
cites work: Contrasting impacts of competition on ecological and social trait evolution in songbirds

RPANDA (cites work)
cites work: A Penalized Likelihood Framework for High-Dimensional Phylogenetic Comparative Methods and an Application to New-World Monkeys Brain Evolution

RPANDA (cites work)
cites work: A model with many small shifts for estimating species-specific diversification rates

RPANDA (cites work)
cites work: Estimating Diversity Through Time Using Molecular Phylogenies: Old and Species-Poor Frog Families are the Remnants of a Diverse Past

RPANDA (cites work)
cites work: Characterizing and Comparing Phylogenetic Trait Data from Their Normalized Laplacian Spectrum

RPANDA (cites work)
cites work: Understanding the effect of competition during evolutionary radiations: an integrated model of phenotypic and species diversification

RPANDA (cites work)
cites work: An individual‐based model for the eco‐evolutionary emergence of bipartite interaction networks

RPANDA (cites work)
cites work: Tempo and mode of morphological evolution are decoupled from latitude in birds

RPANDA (cites work)
cites work: Analysing diversification dynamics using barcoding data: The case of an obligate mycorrhizal symbiont

RPANDA (cites work)
cites work: Do closely related species interact with similar partners? Testing for phylogenetic signal in bipartite interaction networks

RPANDA (cites work)
cites work: Estimating clade‐specific diversification rates and palaeodiversity dynamics from reconstructed phylogenies

RPANDA (cites work)
cites work: Limited ecological opportunity influences the tempo of morphological evolution in birds

RPANDA (MaRDI profile type)
MaRDI profile type: Software

RPANDA (source code repository)
source code repository: RPANDA

RPANDA (Software Heritage ID)
source code repository: RPANDA
point in time: 2024-02-22T00:00:00Z

RPANDA (maintained by)
maintained by: Hélène Morlon