Recursively Partitioned Mixture Model

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Documentation for package ‘RPMM’ version 1.05

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betaEst Beta Distribution Maximum Likelihood Estimator
betaEstMultiple Beta Maximum Likelihood on a Matrix
betaObjf Beta Maximum Likelihood Objective Function
blc Beta Latent Class Model
blcInitializeSplitDichotomizeUsingMean Initialize Gaussian Latent Class via Mean Dichotomization
blcInitializeSplitEigen Initialize Gaussian Latent Class via Eigendecomposition
blcInitializeSplitFanny Initialize Beta Latent Class via Fanny
blcInitializeSplitHClust Initialize Beta Latent Class via Hierarchical Clustering
blcSplit Beta Latent Class Splitter
blcSplitCriterionBIC Beta RPMM Split Criterion: Use BIC
blcSplitCriterionBICICL Beta RPMM Split Criterion: Use ICL-BIC
blcSplitCriterionJustRecordEverything Beta RPMM Split Criterion: Always Split and Record Everything
blcSplitCriterionLevelWtdBIC Beta RPMM Split Criterion: Level-Weighted BIC
blcSplitCriterionLRT Beta RPMM Split Criterion: use likelihood ratio test p value
blcSubTree Beta Subtree
blcTree Beta RPMM Tree
blcTreeApply Recursive Apply Function for Beta RPMM Objects
blcTreeLeafClasses Posterior Class Assignments for Beta RPMM
blcTreeLeafMatrix Posterior Weight Matrix for Beta RPMM
blcTreeOverallBIC Overall BIC for Entire RPMM Tree (Beta version)
gaussEstMultiple Gaussian Maximum Likelihood on a Matrix
glc Gaussian Finite Mixture Model
glcInitializeSplitEigen Initialize Gaussian Latent Class via Eigendecomposition
glcInitializeSplitFanny Initialize Gaussian Latent Class via Fanny
glcInitializeSplitHClust Initialize Gaussian Latent Class via Hierarchical Clustering
glcSplit Gaussian Latent Class Splitter
glcSplitCriterionBIC Gaussian RPMM Split Criterion: Use BIC
glcSplitCriterionBICICL Gaussian RPMM Split Criterion: Use ICL-BIC
glcSplitCriterionJustRecordEverything Gaussian RPMM Split Criterion: Always Split and Record Everything
glcSplitCriterionLevelWtdBIC Gaussian RPMM Split Criterion: Level-Weighted BIC
glcSplitCriterionLRT Gaussian RPMM Split Criterion: Use likelihood ratio test p value
glcSubTree Gaussian Subtree
glcTree Gaussian RPMM Tree
glcTreeApply Recursive Apply Function for Gaussian RPMM Objects
glcTreeLeafClasses Posterior Class Assignments for Gaussian RPMM
glcTreeLeafMatrix Posterior Weight Matrix for Gaussian RPMM
glcTreeOverallBIC Overall BIC for Entire RPMM Tree (Gaussian version)
IllumBeta DNA Methylation Data for Normal Tissue Types
IlluminaMethylation DNA Methylation Data for Normal Tissue Types
plot.blcTree Plot a Beta RPMM Tree Profile
plot.glcTree Plot a Gaussian RPMM Tree Profile
plotImage.blcTree Plot a Beta RPMM Tree Profile
plotImage.glcTree Plot a Gaussian RPMM Tree Profile
plotTree.blcTree Plot a Beta RPMM Tree Dendrogram
plotTree.glcTree Plot a Gaussian RPMM Tree Dendrogram
print.blcTree Print a Beta RPMM object
print.glcTree Print a Gaussian RPMM object
tissue DNA Methylation Data for Normal Tissue Types