slidingGRegions: Generates intervals for a GRanges objects
In genomaths/MethylIT: Methylation Analysis Based on Signal Detection

slidingGRegions

R Documentation

Generates intervals for a GRanges objects

Description

slidingGRegions generates sliding intervals of a specified width.

Usage

slidingGRegions(
  GR,
  win.size = 1,
  step.size = 1,
  num.cores = 1L,
  tasks = 0,
  verbose = FALSE,
  ...
)

Arguments

`GR`	A `GRanges-class` object or a list of `GRanges-class` objects or an object that can be coerced to a list of `GRanges-class` objects.
`win.size`	An integer. The size of the windows/intervals genomics.
`step.size`	Interval at which the regions/windows must be defined
`num.cores, tasks`	Parameters for parallel computation using package `BiocParallel-package`: the number of cores to use, i.e. at most how many child processes will be run simultaneously (see `bplapply` and the number of tasks per job (only for Linux OS).
`verbose`	Logical. Default is TRUE. If TRUE, then the progress of the computational tasks is given.
`...`	Not in use.

Details

This function split a GRange object into intervals regions of fixed size. If win.size == step.size, then non-overlapping windows are obtained. slidingGRegions function generates sliding windows within each range of IRL, according to width and step, returning a IRangesList-class. If the sliding windows do not exactly cover a range in IRL, the last window is partial.