Multi-Modal Matrix Joint Factorization for Integrative Multi-Omics Data Analysis

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Documentation for package ‘M3JF’ version 0.1.0

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

Help Pages

cost	Calculate the cost defined by the objective function
crimmix_data_gen	Generate the simulated dataset with three modalities with the package crimmix
feature_screen_sd	Screen the cluster related features via hypergeometric test p value and distribution standard derivation
feature_selection	Select the cluster related features via hypergeometric test
initialize_WL	Initialize the shared sub-matrix E and modality specific sub-matrices list Hi
iNMF_data_gen	Generate the simulated dataset with three modalities as the work iNMF
intersim_data_gen	Generate the simulated dataset with three modalities with the package InterSIM
kmeanspp	A new version of kmeans that generates stable cluster result
M3JF	Multi-Modal Matrix Joint Factorization
RotationCostBestGivenGraph	Evaluate the cluster number of multiple modality data
simulateY	Generate the simulated dataset with specified parameters
update_E	Update sub-matrix E
update_H	Update sub-matrices list Hi