slice-methods {IRanges} | R Documentation

## Slice a vector-like or list-like object

### Description

`slice` is a generic function that creates views on a vector-like or list-like object that contain the elements that are within the specified bounds.

### Usage

    slice(x, lower=-Inf, upper=Inf, ...)

    ## S4 method for signature 'Rle'
    slice(x, lower=-Inf, upper=Inf,
          includeLower=TRUE, includeUpper=TRUE, rangesOnly=FALSE)

    ## S4 method for signature 'RleList'
    slice(x, lower=-Inf, upper=Inf,
          includeLower=TRUE, includeUpper=TRUE, rangesOnly=FALSE)

### Arguments

`x` | An Rle or RleList object, or any object coercible to an Rle object.
`lower, upper` | The lower and upper bounds for the slice.
`includeLower, includeUpper` | Logical indicating whether or not the specified boundary is open or closed.
`rangesOnly` | A logical indicating whether or not to drop the original data from the output.
`...` | Additional arguments to be passed to specific methods.

### Details

`slice` is useful for finding areas of absolute maxima (peaks), absolute minima (troughs), or fluctuations within specified limits. One or more view summarization methods can be used on the result of `slice`. See `?`link{view-summarization-methods}``

### Value

The method for Rle objects returns an RleViews object if `rangesOnly=FALSE` or an IRanges object if `rangesOnly=TRUE`.

The method for RleList objects returns an RleViewsList object if `rangesOnly=FALSE` or an IRangesList object if `rangesOnly=TRUE`.

### Author(s)

P. Aboyoun

### See Also

- view-summarization-methods for summarizing the views returned by `slice`.

- slice-methods in the XVector package for more `slice` methods.

- `coverage` for computing the coverage across a set of ranges.

- The Rle, RleList, RleViews, and RleViewsList classes.

### Examples

    ## Views derived from coverage
    x <- IRanges(start=c(1L, 9L, 4L, 1L, 5L, 10L),
                 width=c(5L, 6L, 3L, 4L, 3L,  3L))
    cvg <- coverage(x)
    slice(cvg, lower=2)
    slice(cvg, lower=2, rangesOnly=TRUE)

[Package IRanges version 2.24.1 Index]