tileGRanges: Slide windows on a given GRanges object

In jianhong/ChIPpeakAnno: Batch annotation of the peaks identified from either ChIP-seq, ChIP-chip experiments, or any experiments that result in large number of genomic interval data

Slide windows on a given GRanges object

Description

tileGRanges returns a set of genomic regions by sliding the windows in a given step. Each window is called a "tile".

Usage

tileGRanges(targetRegions, windowSize, step, keepPartialWindow = FALSE, ...)

Arguments

targetRegions	A GRanges object of genomic regions of interest.
windowSize	Size of windows
step	Step of windows
keepPartialWindow	Keep last partial window or not.
...	Not used.

Value

A GRanges object.

Author(s)

Jianhong Ou

Examples

    genes <- GRanges(
        seqnames = c(rep("chr2L", 4), rep("chr2R", 5), rep("chr3L", 2)),
        ranges = IRanges(c(1000, 3000, 4000, 7000, 2000, 3000, 3600, 
                           4000, 7500, 5000, 5400), 
                         width=c(rep(500, 3), 600, 900, 500, 300, 900, 
                                 300, 500, 500),
                         names=letters[1:11])) 
    se <- tileGRanges(genes, windowSize=50, step=10)

jianhong/ChIPpeakAnno documentation built on Nov. 1, 2024, 8:55 a.m.