View source: R/content-plots.R
calcDinuclFreqRef | R Documentation |
Given a reference genome (BSgenome object) and ranges on the reference, this function returns a data.table with counts of dinucleotides within the GRanges object.
calcDinuclFreqRef(query, refAssembly, rawCounts = FALSE)
query |
A GRanges object with query sets |
refAssembly |
A character vector specifying the reference genome
assembly (*e.g.* 'hg19'). This will be used to grab chromosome sizes with
|
rawCounts |
a logical indicating whether the raw numbers should be displayed, rather than percentages (optional). |
A numeric vector or list of vectors with the GC percentage of the query regions.
## Not run:
query = system.file("extdata", "vistaEnhancers.bed.gz", package="GenomicDistributions")
GRquery = rtracklayer::import(query)
refAssembly = 'hg19'
DNF = calcDinuclFreqRef(GRquery, refAssembly)
## End(Not run)
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