annotateChipSeqPeaks | Function to match each peaks to associated genes in terms of... |
bCa | Sets of p-values derived from two breast cancer data sets. |
call.treeview | Function to call the standalone fTreeView Java application |
cdt2r | Functions to import files in TreeView format into R. |
chipSeqWeightedSum | Calculate binding strengh by summing weighted chip-seq peaks. |
CLEAN-package | Clustering Enrichment Analysis |
cMap | A set of p-values derived from the Connectivity Map dataset. |
convertFunctionalCategories | Function to convert Entrez gene ID-based functional... |
createRefGenome | Function to match download ref genome platform from UCSC. |
enrichmentGSEA | Performing GSEA analysis with the fgsea package |
generateTreeViewFiles | Wrapper function to perform functional Clustering Enrichment... |
geneSigInClustering | Auxiliary functions to funcClustAnnot and geneListEnrichment |
genesInEnrichedCategories | Function to intersect a gene list with enriched categories |
getBinarySubTree | Get the left or right subtree of a given hierarchical... |
getFuntionalCategories | Retrieve functional categories from species-specific library. |
gimmOut | An gimmR object, i.e. a list containing a dataframe with gene... |
GRS | Function to calculate the Generalized Random Set statistic to... |
LRpath | Testing GO terms or KEGG with logistic regression |
nonHierarchicalClustering | Convert a non-hierarchical clustering into hierarchical... |
plotCLEANscore | Function to generate a diagnostic plot using the CLEAN score |
qvalue | Estimate the q-values for a given set of p-values |
r2cdt | Functions to generate fTreeView files |
RandomSet | Testing GO terms, KEGG pathways, and other categories with... |
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