Mixture Nested Effects Models

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Documentation for package ‘mnem’ version 1.16.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

app	Processed scRNAseq from pooled CRISPR screens
bootstrap	Bootstrap.
clustNEM	Cluster NEM.
createApp	Creating app data.
fitacc	Simulation accuracy.
fuzzyindex	Calculate fuzzy ground truth.
getAffinity	Calculate responsibilities.
getIC	Calculate negative penalized log likelihood.
hamSim	Accuracy for two phis.
mnem	Mixture NEMs - main function.
mnemh	Hierarchical mixture.
mnemk	Learn the number of components K and optimize the mixture.
moreboxplot	Boxplot with scatter and density options
nem	Implementation of the original NEM
plot.bootmnem	Plot bootstrap mnem result.
plot.mnem	Plot mnem result.
plot.mnem_mcmc	Plot mnem_mcmc result.
plot.mnem_sim	Plot simulated mixture.
plotConvergence	Plot convergence of EM
plotConvergence.mnem	Plot convergence of EM
plotDnf	Plot disjunctive normal form.
scoreAdj	Network score
simData	Simulate data.
transitive.closure	Transitive closure of a directed acyclic graph (dag)
transitive.reduction	Transitive reduction