CIMLR {SIMLR}R Documentation

please refer to https://github.com/danro9685/CIMLR

Description

perform the CIMLR clustering algorithm

Usage

CIMLR(X, c, no.dim = NA, k = 10, cores.ratio = 1)

Arguments

X

a list of multi-omic data each of which is an (m x n) data matrix of measurements of cancer patients

c

number of clusters to be estimated over X

no.dim

number of dimensions

k

tuning parameter

cores.ratio

ratio of the number of cores to be used when computing the multi-kernel

Value

clusters the patients based on CIMLR and their similarities

list of 8 elements describing the clusters obtained by CIMLR, of which y are the resulting clusters: y = results of k-means clusterings, S = similarities computed by CIMLR, F = results from network diffiusion, ydata = data referring the the results by k-means, alphaK = clustering coefficients, execution.time = execution time of the present run, converge = iterative convergence values by T-SNE, LF = parameters of the clustering


[Package SIMLR version 1.10.0 Index]