Package: MPSEM 0.4-4

Guillaume Guénard

MPSEM: Modelling Phylogenetic Signals using Eigenvector Maps

Computational tools to represent phylogenetic signals using adapted eigenvector maps.

Authors:Guillaume Guénard [aut, cre], Pierre Legendre [ctb]

MPSEM_0.4-4.tar.gz
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MPSEM.pdf |MPSEM.html✨
MPSEM/json (API)

# Install 'MPSEM' in R:
install.packages('MPSEM', repos = c('https://guenardg.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/guenardg/mpsem/issues

On CRAN:

4.78 score 1 packages 20 scripts 510 downloads 2 mentions 23 exports 6 dependencies

Last updated 3 months agofrom:ee56080d10. Checks:OK: 9. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 03 2024
R-4.5-win-x86_64OKNov 03 2024
R-4.5-linux-x86_64OKNov 03 2024
R-4.4-win-x86_64OKNov 03 2024
R-4.4-mac-x86_64OKNov 03 2024
R-4.4-mac-aarch64OKNov 03 2024
R-4.3-win-x86_64OKNov 03 2024
R-4.3-mac-x86_64OKNov 03 2024
R-4.3-mac-aarch64OKNov 03 2024

Exports:add.edgeadd.vertexcollapse.vertexEvolveOptimMarkovTreegetAncGraphLocationsgetGraphLocationslmforwardsequentialAICclmforwardsequentialsidakLocations2PEMscoresOUvarPEM.buildPEM.fitSimplePEM.forcedSimplePEM.updaterPEMInfluencePEMvarPEMweightsPhylo2DirectedGraphpop.graphrm.edgerm.vertexTraitOUsimTreeTraitVarGraphSim

Dependencies:apedigestlatticeMASSnlmeRcpp

A phylogenetic modelling tutorial using Phylogenetic Eigenvector Maps (PEM) as implemented in R package MPSEM (0.4-4)

Guillaume Guénard

Rendered fromREM_with_MPSEM.Rmdusingknitr::rmarkdownon Nov 03 2024.

Last update: 2024-09-04
Started: 2022-07-28

Readme and manuals

Help Manual

Help pageTopics
Modelling Phylogenetic Signals using Eigenvector MapsMPSEM-package
Class and Method for Directed Graphsgraph graph-class print.graph
MPSEM graph Manipulation Functionsadd.edge add.vertex collapse.vertex graph-functions Phylo2DirectedGraph pop.graph rm.edge rm.vertex
Linear Modelling Utility Functionslm-utils lmforwardsequentialAICc lmforwardsequentialsidak utils
Class and Methods for Phylogenetic Eigenvector Maps (PEM)as.data.frame.PEM PEM PEM-class predict.PEM print.PEM
Phylogenetic Eigenvector MapsgetAncGraphLocations getGraphLocations Locations2PEMscores PEM-functions PEM.build PEM.fitSimple PEM.forcedSimple PEM.updater PEMInfluence PEMweights
Simulate the Evolution of a Quantitative TraitEvolveOptimMarkovTree OUvar PEMvar simulation trait trait-simulator TraitOUsimTree TraitVarGraphSim