top_genes_cluster_tissues: Cluster tissues

In andrewthomasjones/EMMIXgene_no_f: A Mixture Model-Based Approach to the Clustering of Microarray Expression Data

Cluster tissues

Description

Cluster tissues

Usage

top_genes_cluster_tissues(gen, n_top = 100, method = "mfa", q = 2, g = 2)

Arguments

gen	An EMMIXgene object produced by select_genes().
n_top	number of top genes (as ranked by likelihood) to be selected
method	Method for separating tissue classes. Can be either 't' for a univariate mixture of t-distributions on gene cluster means, or 'mfa' for a mixture of factor analysers.
q	number of factors if using mfa
g	number of components if using mfa

Value

An EMMIXgene object containing:

stat	A matrix containing clustering (0 or 1) for each sample (columns) by each group(rows).
top_gene	The row numbers of the top genes.
fit	The fit object used to determine the clustering.

Examples

alon_sel <- select_genes(alon_data[seq_len(100), ])
alon_top_10<-top_genes_cluster_tissues(alon_sel, 10, method='mfa', q=3, g=2)

andrewthomasjones/EMMIXgene_no_f documentation built on Feb. 3, 2024, 3:38 p.m.