Biologically Explainable Machine Learning Framework

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Documentation for package ‘BioM2’ version 1.0.8

• DESCRIPTION file.
• Package NEWS.

Help Pages

AddUnmapped	Add unmapped probe
baseModel	Prediction by Machine Learning
BioM2	Biologically Explainable Machine Learning Framework
FindParaModule	Find suitable parameters for partitioning pathways modules
GO2ALLEGS_BP	An example about pathlistDB
GO_Ancestor	Pathways in the GO database and their Ancestor
GO_Ancestor_exact	Pathways in the GO database and their Ancestor
HybaseModel	Selection of the optimal base model
HyBioM2	BioM2 Hyperparametric Combination
MethylAnno	An example about FeatureAnno for methylation data
MethylData_Test	An example about TrainData/TestData for methylation data
PathwaysModule	Delineate differential pathway modules with high biological interpretability
PlotCorModule	Correlalogram for Biological Differences Modules
PlotPathFearture	Visualisation of significant pathway-level features
PlotPathInner	Visualisation Original features that make up the pathway
PlotPathNet	Network diagram of pathways-level features
ShowModule	Display biological information within each pathway module
Stage1_FeartureSelection	Stage 1 Fearture Selection
Stage2_FeartureSelection	Stage 2 Fearture Selection
TransAnno	An example about FeatureAnno for gene expression
TransData_Test	An example about TrainData/TestData for gene expression
VisMultiModule	Visualisation of the results of the analysis of the pathway modules