intersectScoreMatrixList {genomation} | R Documentation

## Get common rows from all matrices in a ScoreMatrixList object

### Description

Returns a intersection of rows for each matrix in a ScoreMatrixList object. This is done using the rownames of each element in the list.

### Usage

    intersectScoreMatrixList(sml, reorder = FALSE)

    ## S4 method for signature 'ScoreMatrixList'
    intersectScoreMatrixList(sml, reorder = FALSE)

### Arguments

`sml` | a `ScoreMatrixList` object
`reorder` | if TRUE `ScoreMatrix` objects in the list are sorted based on their common row ids.

### Value

`ScoreMatrixList` object

### Examples

    library(GenomicRanges)
    target = GRanges(rep(c(1,2),each=7),
                      IRanges(rep(c(1,1,2,3,7,8,9), times=2), width=5),
                      weight = rep(c(1,2),each=7))

    windows1 = GRanges(rep(c(1,2),each=2),
                        IRanges(rep(c(1,2), times=2), width=5),
                        strand=c('-','+','-','+'))
    windows2 = windows1[c(1,3)]
    sml = as(list(ScoreMatrix(target, windows1),
                   ScoreMatrix(target, windows2)), 'ScoreMatrixList')
    sml
    intersectScoreMatrixList(sml)

[Package genomation version 1.11.3 Index]