Package 'ChIPpeakAnno' - Bioconductor

16 enrichedGOArgumentspatternsequencesDNAstringSet objecta vector of sequencesValueTotal number of occurrence of the pattern in the sequencesAuthor(s)See AlsoLihua Julie ZhusummarizePatternInPeaks, translatePatternExamplesfilepath = system.file("extdata", "examplePattern.fa", package="ChIPpeakAnno")dict = readDNAStringSet(filepath = filepath, format="fasta", use.names=TRUE)sequences = c("ACTGGGGGGGGCCTGGGCCCCCAAAT", "AAAAAACCCCTTTTGGCCATCCCGGGACGGGCCCAT", "ATCGAAAATTTCC")countPatternInSeqs(pattern=dict[1], sequences=sequences)countPatternInSeqs(pattern=dict[2], sequences=sequences)pattern = DNAStringSet("ATNGMAA")countPatternInSeqs(pattern=pattern, sequences=sequences)enrichedGOEnriched Gene Ontology terms used as exampleDescriptionUsageFormatEnriched Gene Ontology terms used as exampledata(enrichedGO)A list of 3 variables.bp enriched biological process with 9 variablesgo.id:GO biological process idgo.term:GO biological process termgo.Definition:GO biological process descriptionOntology: Ontology branch, i.e. BP for biological processcount.InDataset: count of this GO term in this dataset