Package: miaSim 1.19.0

Yagmur Simsek

miaSim: Microbiome Data Simulation

Microbiome time series simulation with generalized Lotka-Volterra model, Self-Organized Instability (SOI), and other models. Hubbell's Neutral model is used to determine the abundance matrix. The resulting abundance matrix is applied to (Tree)SummarizedExperiment objects.

Authors:Yagmur Simsek [cre, aut], Karoline Faust [aut], Yu Gao [aut], Emma Gheysen [aut], Daniel Rios Garza [aut], Tuomas Borman [aut], Leo Lahti [aut], Geraldson Muluh [ctb], Akewak Jeba [ctb]

miaSim_1.19.0.tar.gz
miaSim_1.19.0.zip(r-4.7)miaSim_1.19.0.zip(r-4.6)miaSim_1.19.0.zip(r-4.5)
miaSim_1.19.0.tgz(r-4.6-any)miaSim_1.19.0.tgz(r-4.5-any)
miaSim_1.19.0.tar.gz(r-4.7-any)miaSim_1.19.0.tar.gz(r-4.6-any)
miaSim_1.19.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
miaSim/json (API)
NEWS

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

Bug tracker:https://github.com/microbiome/miasim/issues

On BioConductor:miaSim-1.19.0(bioc 3.24)miaSim-1.18.0(bioc 3.23)

microbiomesoftwaresequencingdnaseqatacseqcoveragenetwork

7.07 score 22 stars 30 scripts 354 downloads 13 exports 62 dependencies

Last updated from:6f6c343112. Checks:1 NOTE, 9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE211
linux-devel-x86_64OK498
source / vignettesOK275
linux-release-x86_64OK475
macos-release-arm64OK259
macos-oldrel-arm64OK269
windows-develOK302
windows-releaseOK282
windows-oldrelOK315
wasm-releaseOK160

Exports:.simulationTimespowerlawArandomArandomErdirichletsimulateConsumerResourcesimulateEventTimessimulateGLVsimulateHubbellsimulateHubbellRatessimulateRickersimulateSOIsimulateStochasticLogistic

Dependencies:abindapeBHBiobaseBiocGenericsBiocParallelBiostringsclicodetoolscpp11crayonDelayedArraydeSolvedigestdplyrformatRfsfutile.loggerfutile.optionsgenericsGenomicRangesglueIRangesjsonlitelambda.rlatticelazyevallifecyclemagrittrMatrixMatrixGenericsmatrixStatsnlmepillarpkgconfigpoweRlawpracmapurrrR6rappdirsRcpprlangS4ArraysS4VectorsSeqinfoSingleCellExperimentsnowSparseArraystringistringrSummarizedExperimenttibbletidyrtidyselecttidytreetreeioTreeSummarizedExperimentutf8vctrswithrXVectoryulab.utils

miaSim: Microbiome Data Simulation

Rendered frommiaSim.Rmdusingknitr::rmarkdownon Jun 02 2026.

Last update: 2025-07-01
Started: 2021-09-17