cogena (version 1.6.2)

geneInCluster: Get gene names in a certain cluster.

Description

Get gene names in a certain cluster. This is helpful if user want to get the detail of a cluster.

Usage

geneInCluster(object, method, nCluster, ith)
"geneInCluster"(object, method = clusterMethods(object), nCluster = nClusters(object), ith)

Arguments

object

a cogena object

method

a clustering method

nCluster

cluster number

ith

the i-th cluster (should no more than nCluster)

Value

a character vector containing the gene names.

See Also

clEnrich

Examples

data(Psoriasis)
annofile <- system.file("extdata", "c2.cp.kegg.v5.0.symbols.gmt.xz", 
package="cogena")

## Not run: 
# genecl_result <- coExp(DEexprs, nClust=2:3, clMethods=c("hierarchical","kmeans"), 
#     metric="correlation", method="complete", ncore=2, verbose=TRUE)
# 
# clen_res <- clEnrich(genecl_result, annofile=annofile, sampleLabel=sampleLabel)
# 
# #summay this cogena object
# summary(clen_res)
# 
# #geneInCluster
# g1 <- geneInCluster(clen_res, "kmeans", "3", "2")
# 
# #Up or Down genes with setting nCluster as "2".
# g2 <- geneInCluster(clen_res, "kmeans", "2", "1")
# ## End(Not run)