methylPipe (version 1.6.2)

BSdata-class: Class "BSdata"

Description

This class is used in the methylPipe library to point to a TABIX compressed file containing base-resolution DNA-methylation data and reference genome sequence

Objects from the Class

Objects can be created by calls of the form new("BSdata", ...) or using the function BSdata(file, uncov, org) whose arguments are described in the next section Slots.

See Also

BSprepare,mCsmoothing

Examples

require(BSgenome.Hsapiens.UCSC.hg18)
H1data <- system.file('extdata', 'H1_chr20_CG_10k_tabix_out.txt.gz', package='methylPipe')
uncov_GR <- GRanges(Rle('chr20'), IRanges(c(14350,69251,84185), c(18349,73250,88184)))
H1.db <- BSdata(file=H1data, uncov=uncov_GR, org=Hsapiens)