Get DSB hotspots

Returns double-strand break (DSB) hotspots mapped using the Spo11 oligo technique. FASTQ data aligned from scratch for the package. Hotspots originally published in Pan et al. 2011 and in Thacker et al. 2014).

get_dsb_hotspots(genome, as_df = FALSE)

Arguments

genome

Character object specifying the genome version; accepts one of the following options:

  1. "SK1Yue"

  2. "sacCer3"

No default.
as_df

Logical specifying whether the output should be returned as a data frame. If FALSE, output is a GRanges object. Defaults to FALSE.

Value

Either a Granges or a data.frame object containing DSB hotspot start and end coordinates, as well as intensity.

Examples

# NOT RUN {
get_dsb_hotspots(genome='SK1Yue')

get_dsb_hotspots(genome='sacCer3', as_df=TRUE)
# }