getNEMO: Get subtypes from NEMO

Description Usage Arguments Value References Examples

View source: R/getNEMO.R

Description

This function wraps the NEMO (Neighborhood based multi-omics clustering) algorithm and provides standard output for 'getMoHeatmap()' and 'getConsensusMOIC()'.

Usage

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getNEMO(
  data = NULL,
  N.clust = NULL,
  type = rep("gaussian", length(data)),
  num.neighbors = NA
)

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.

num.neighbors

The number of neighbors to use for each omic.

Value

A list with the following components:

fit an object returned by nemo.clustering.

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

Rappoport N, Shamir R (2019). NEMO: cancer subtyping by integration of partial multi-omic data. Bioinformatics, 35(18):3348-3356.

Examples

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# There is no example and please refer to vignette.

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