segReadsGeneric {PICS} | R Documentation

## Perform genome segmentation depending

### Description

Perform genome segmentation depending

### Usage

    segReadsGeneric(
      data,
      dataC = NULL,
      map = NULL,
      minReads = 2,
      minReadsInRegion = 3,
      jitter = FALSE,
      maxLregion = 0,
      minLregion = 100,
      step = 20,
      width = 250,
      package = "PICS"
    )

### Arguments

`data` | A `GRanges` object containing the IP reads. See details for more information on how to set up the data.
`dataC` | A `GRanges` object containing the control reads. Set to NULL by default, i.e. no control.
`map` | A `GRanges` object containing the mappability profiles. Set to NULL by default, i.e. no profiles.
`minReads` | A `numeric`. The minimum number of F/R reads to be present in the sliding window.
`minReadsInRegion` | A `numeric`. The minimum number of F/R reads to be present in the region.
`jitter` | A `logical` value stating whether some noise should be added to the read locations. This is recommended if the read positions have lots of duplicates.
`maxLregion` | A `numeric`. The maximum length.
`minLregion` | A `numeric`. The minimum length.
`step` | A `numeric`. The increment of the sliding window.
`width` | A `numeric`. The width of the region.
`package` | A `character`. "PICS" or "PING"

[Package PICS version 2.38.0 Index]