getIntNMF: Get subtypes from IntNMF

In xlucpu/MOVICS: Multi-Omics integration and VIsualization in Cancer Subtyping

Description

This function wraps the IntNMF (Integrative Clustering via Non-negative Matrix Factorization) algorithm and provides standard output for 'getMoHeatmap()' and 'getConsensusMOIC()'.

Usage

getIntNMF(data = NULL, N.clust = NULL, type = rep("gaussian", length(data)))

Arguments

data	List of matrices.
N.clust	Number of clusters.
type	Data type corresponding to the list of matrics, which can be gaussian, binomial or possion.

Value

A list with the following components:

fit an object returned by nmf.mnnals.

clust.res a data.frame storing sample ID and corresponding clusters.

mo.method a string value indicating the method used for multi-omics integrative clustering.

References

Chalise P, Fridley BL (2017). Integrative clustering of multi-level omic data based on non-negative matrix factorization algorithm. PLoS One, 12(5):e0176278.

Examples

# There is no example and please refer to vignette.

xlucpu/MOVICS documentation built on July 24, 2021, 9:23 p.m.