getKaryotype-methods: Replace the karyotype of a 'GreyList' object
In GreyListChIP: Grey Lists -- Mask Artefact Regions Based on ChIP Inputs

Description Usage Arguments Value Author(s) See Also Examples

Though a BSgenome object (or a karyotype file) is supplied when the GreyList object is created, it is conceivable that the user might want to replace it. This method allows that.

1	getKaryotype(obj, genome, tileSize=1024)

`obj`	A `GreyList` object.
`genome`	A `BSgenome` object, from which to take the karyotype.
`tileSize`	The size in nucleotides of each tile. Overlapping tiles will be generated, spaced at 1/2 the width of the tiles.

Returns the GreyList object with a new genome and tiling.

Gord Brown

GreyList, BSgenome

# Load a pre-built GreyList objct.
data(greyList)
library(BSgenome.Hsapiens.UCSC.hg19)

# Replace the karyotype, updating the genome tiling.
## Not run: gl <- getKaryotype(greyList,BSgenome.Hsapiens.UCSC.hg19)