AllGeneSymbols          All the gene symbols
DEexprs                 gene expression of DEG
PEI                     Significance of Gene sets enrichment.
Psoriasis               Psoriasis dataset.
clEnrich                Gene set enrichment for clusters
clEnrich_one            Gene set enrichment for clusters (for one
                        clustering method and a certain number of
                        clusters)
clusterMethods          Basic methods for a genecl object.
coExp                   co-expressed gene-set enrichment analysis
cogena-class            An S4 class to represent co-expressed gene-set
                        enrichment analysis result.
cogena_package          Co-expressed gene set enrichment analysis
corInCluster            Correlation in the cluster of a cogena object
enrichment              get the enrichment table from a cogena object.
gene2set                generate relationship between genes and
                        gene-sets
geneExpInCluster        Get gene names in each clusters and the
                        expression profiling.
geneInCluster           Get gene names in a certain cluster.
genecl-class            An S4 class to represent co-expressed gene
geneclusters            geneclusters: get the cluster information of a
                        certain clustering method with a certain
                        number.
gmt2list                read gmt file as a list
gmtlist2file            write gmt list into gmt file
heatmapCluster          heatmap of gene expression profilings with
                        cluster indication.
heatmapCmap             heatmap designed for for CMap gene set only
heatmapPEI              heatmap of the gene set enrichment from a
                        cogena object.
mat                     mat: get the original data from a genecl
                        object.
nClusters               nClusters: get the number of clusters from a
                        genecl object.
sampleLabel             label of samples
show,cogena-method      show: show the class of cogena or genecl object
sota                    Self-organizing tree algorithm (SOTA)
summary,genecl-method   summary: a summary of a genecl object.
upDownGene              Show up or down-regualted genes for a
                        clustering method and the number of clusters.
