binGenome: Function for binning a genome.

In h5vc: Managing alignment tallies using a hdf5 backend

Description

Function for generating a GRanges representation of a binning of the genome given in the reference object.

Usage

binGenome(reference, binsize = 1e+06, chroms = seqnames(reference))

Arguments

reference	A BSgenome object.
binsize	Size of bins along the genome.
chroms	Which chromosomes to use, defaults to all chromosome described as seqnames of the reference object.

Details

This function creates a GRanges object that represents bins of size binsize along the genome represented by the reference object.

Value

A GRanges object that represents bins of size binsize along the genome represented by the reference object, includes special handling of chromosomes shorter than binsize and the last bin of each chromosome.

Author(s)

Paul Theodor Pyl

See Also

defineBlocks

Examples

library(BSgenome.Hsapiens.NCBI.GRCh38)
bins <- binGenome(Hsapiens, binsize = 100e6, chroms = c("1","2","3","X","MT"))
bins

h5vc documentation built on Nov. 8, 2020, 4:56 p.m.