TCGA_getImportantGenes: TCGA_getImportantGenes

In rshudde/RJclust: RJ Clustering Algorithm

Description

TCGA_getImportantGenes

Usage

TCGA_getImportantGenes(TCGA_data, classificationResults, threshold_clean,
  cluster, threshold_importance = NULL, num_return = NULL)

Arguments

TCGA_data	Original TCGA dataset ( unprocessed )
classificationResults	'cluster' results from running RJalgorithm
threshold_clean	Percentage of 0s that will cause a gene ( column ) to be discarded
cluster	Which cluster you want analyzed ( an integer )
threshold_importance	What value to consdier a gene "important" ( default is a gene more than 2 times the standard deviation )
num_return	Number of important genes to be returned (won't apply if num_return is lower than the number under threshold_importance)

Value

Returns a list of genes and their sums of importance

Examples

data(OV)
X = TCGA_cleanData(OV)
G = RJclust(X, 3)$classification
important_genes = TCGA_getImportantGenes(OV, G, 0, 1)

rshudde/RJclust documentation built on Dec. 8, 2019, 4:06 p.m.