API for zellerlab/SIMBA
Simulation of Microbiome Data with Biological Accuracy

Global functions
ANCOM Source code
apply.test Man page Source code
calculate.phi Source code
check.common.simulation.parameters Source code
check.eval.parameters Source code
check.filtering.parameters Source code
check.original.data Source code
check.resampling.limits Source code
check.simulation.location Source code
check.simulation.parameters Source code
check.testing.parameters Source code
clean.meta.data Source code
clear.biased.idx Source code
clear.idx Source code
confounder.check Source code
create.biased.idx Man page Source code
create.data.simulation Man page Source code
create.resampling.simulations Source code
create.test.idx Man page Source code
eval.real.test Source code
eval.test Man page Source code
feature_table_pre_process Source code
filter.data Source code
fit.parameters Man page Source code
fixInf Man page Source code
funcForceMinCountsInMinSamples Source code
funcGetExp Source code
funcGetMu Source code
funcGetRowMetric Source code
funcGetSD Source code
funcMakeFeature Source code
funcRoundMatrix Source code
funcSample Source code
funcSpikeNewBug Source code
funcTruncatedRLNorm Source code
funcUpdateDistributionToExpectation Source code
func_zero_inflate Source code
microbesim Source code
norm.data Source code
pcoa.check.parameters Source code
pcoa.plot Man page Source code
perform.idx.bias.checks Source code
piMoM4Wald Source code
qbetabin Source code
rDirichlet Source code
reality.check Man page Source code
reality.check.parameters Source code
rmvbetabin Source code
rmvnegbin Man page Source code
run.test Source code
save.biomarker.idx Source code
save.confounder.idx Source code
save.idx Source code
save.random.idx Source code
select.features Source code
simulate.MMH Man page Source code
simulate.SimMSeq Man page Source code
simulate.W Man page Source code
simulate.betabin Man page Source code
simulate.dirmult Man page Source code
simulate.markers.MMH Source code
simulate.markers.W Source code
simulate.markers.betabin Man page Source code
simulate.markers.dirmult Man page Source code
simulate.markers.negbin Man page Source code
simulate.negbin Man page Source code
simulate.resampling Source code
simulate.sparseDOSSA Source code
test.ANCOM Source code
test.ANCOM.2 Source code
test.ANCOMBC Source code
test.DESeq Source code
test.LDM Source code
test.MGS Source code
test.ZIBseq Source code
test.ZIBseq_sqrt Source code
test.ZicoSeq Source code
test.corncob Source code
test.edgeR Source code
test.fastANCOM Source code
test.fisher Source code
test.linda Source code
test.lm Source code
test.ttest Source code
test.via.limma Source code
test.wilcoxon Source code
toy.feat Man page
toy.meta Man page
validate.original.data Source code
zellerlab/SIMBA documentation built on June 2, 2025, 6:25 a.m.