scaledWindowPositions {ORFik} | R Documentation

## Scale (bin) windows to a meta window of given size

### Description

For example scale a coverage table of a all human CDS to width 100

### Usage

    scaledWindowPositions(grl, reads, scaleTo = 100, scoring = "meanPos")

### Arguments

`grl` | GRangesList or GRanges of your ranges
`reads` | GRanges object of your reads.
`scaleTo` | an integer (100), if windows have different size, a meta window can not directly be created, since a meta window must have equal size for all windows. Rescale all windows to scaleTo. i.e c(1,2,3) -> size 2 -> c(1, mean(2,3)) etc. Can also be a vector, 1 number per grl group.
`scoring` | a character, one of (meanPos, sumPos)

### Details

Nice for making metaplots, the score will be mean of merged positions.

### Value

A data.table with scored counts (counts) of reads mapped to positions (position) specified in windows along with frame (frame).

### See Also

Other coverage: `coverageScorings()`, `metaWindow()`, `windowPerReadLength()`

### Examples

    library(GenomicRanges)
    windows <- GRangesList(GRanges("chr1", IRanges(1, 200), "-"))
    x <- GenomicRanges::GRanges(
      seqnames = "chr1",
      ranges =  IRanges::IRanges(c(1, 100, 199), c(2, 101, 200)),
      strand = "-")
    scaledWindowPositions(windows, x, scaleTo = 100)

[Package ORFik version 1.6.9 Index]