Package: MPSEM 0.5-1

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_0.5-1.tar.gz
MPSEM_0.5-1.tar.gz(r-4.5-noble)MPSEM_0.5-1.tar.gz(r-4.4-noble)
MPSEM_0.5-1.tgz(r-4.4-emscripten)MPSEM_0.5-1.tgz(r-4.3-emscripten)
MPSEM.pdf |MPSEM.html
MPSEM/json (API)

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

Peer review:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

4.08 score 1 packages 20 scripts 416 downloads 2 mentions 24 exports 7 dependencies

Last updated 6 days agofrom:5970ecb4d9. Checks:OK: 2. Indexed: no.

TargetResultDate
Doc / VignettesOKOct 24 2024
R-4.5-linux-x86_64OKOct 24 2024

Exports:add.edgeadd.vertexcollapse.vertexdstGraphEvolveOptimMarkovTreegetAncGraphLocationsgetGraphLocationsInflMatlmforwardsequentialAICclmforwardsequentialsidakLocations2PEMscoresOUvarPEM.buildPEM.fitSimplePEM.forcedSimplePEM.updaterPEMvarPEMweightsPhylo2DirectedGraphpop.graphrm.edgerm.vertexTraitOUsimTreeTraitVarGraphSim

Dependencies:apedigestlatticemagrittrMASSnlmeRcpp

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

Rendered fromREM_with_MPSEM.Rmdusingknitr::rmarkdownon Oct 24 2024.

Last update: 2024-10-23
Started: 2024-09-05

Readme and manuals

Help Manual

Help pageTopics
Modelling Phylogenetic Signals using Eigenvector MapsMPSEM-package
Distance-Based Directed GraphdstGraph
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 InflMat Locations2PEMscores PEM-functions PEM.build PEM.fitSimple PEM.forcedSimple PEM.updater PEMweights
Simulate the Evolution of a Quantitative TraitEvolveOptimMarkovTree OUvar PEMvar simulation trait trait-simulator TraitOUsimTree TraitVarGraphSim