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MSCsimtester (version 1.2)

Tests of Multispecies Coalescent Gene Tree Simulator Output

Description

Statistical tests for validating multispecies coalescent gene tree simulators, using pairwise distances and rooted triple counts. See Allman ES, Baños HD, Rhodes JA 2023. Testing multispecies coalescent simulators using summary statistics, IEEE/ACM Trans Comput Biol Bioinformat, 20(2):1613–1618. .

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Version

Install

install.packages('MSCsimtester')

Monthly Downloads

232

Version

1.2

License

MIT + file LICENSE

Maintainer

Elizabeth Allman

Last Published

August 22nd, 2026

Functions in MSCsimtester (1.2)

ADtest

Anderson-Darling test comparing sample and theoretical pairwise distance distributions.
pairwiseDist

Compute and plot sample and theoretical pairwise distance densities.
plotEdgeOrder

Plot species tree, with edge numbers on edges.
rootedTriple

Compare expected and sample frequencies of topological rooted triples.
plotPops

Plot species tree, with population sizes on edges.
print.ADtestOutput

Print function for objects of class ADtestOutput.
print.rootedTripleOutput

Print function for objects of class rootedTripleOutput.
genetreeSample

Simulated gene tree dataset.
MSCsimtester-package

Validity tests of simulators of the multspecies coalescent model in phylogenomics.