geneExpInCluster {cogena} | R Documentation |
Get gene names in each clusters and the expression profiling. This output is helpful if user want to analyse the data for other application.
geneExpInCluster(object, method, nCluster) ## S4 method for signature 'cogena' geneExpInCluster(object, method = clusterMethods(object), nCluster = nClusters(object))
object |
a genecl or cogena object |
method |
as clMethods in genecl function |
nCluster |
as nClust in cogena function. |
a list containing a matrix of cluster_id with expression profiling and label a vector of the sample labels.
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) #geneExpInCluster geneExp <- geneExpInCluster(clen_res, "kmeans", "3") ## End(Not run)