discoverFeatureSpecificMotifs {RCAS} | R Documentation |
This function groups query regions based on their overlap with different transcript features and generates a table of top enriched motif and matching patterns for each given transcript feature type along with some other motif discovery related statistics.
discoverFeatureSpecificMotifs(queryRegions, txdbFeatures, ...)
queryRegions |
GRanges object containing coordinates of input query
regions imported by the |
txdbFeatures |
A list of GRanges objects where each GRanges object
corresponds to the genomic coordinates of gene features such as promoters,
introns, exons, 5'/3' UTRs and whole transcripts.
This list of GRanges objects are obtained by the function
|
... |
Other arguments passed to |
A data.frame object
## Not run: data(gff) data(queryRegions) txdbFeatures <- getTxdbFeaturesFromGRanges(gffData = gff) discoverFeatureSpecificMotifs(queryRegions = queryRegions, genomeVersion = 'hg19', txdbFeatures = txdbFeatures, motifN = 1, nCores = 1) ## End(Not run)