collapseRepliCounts {manta} | R Documentation

## Collapse multiple technical replicate count columns into two columns for plotting

### Description

.

### Usage

    collapseRepliCounts(x, pair=nv(levels(x$samples$group)[1:2] , c('ref','obs')))

### Arguments

`x` | a MANTA object.
`pair` | the pairs indicating which columns to collapse

### Value

a collapsed, two-column count table

### See Also

DGEList, manta

### Examples

    cts <- matrix(data=rnbinom(28,2,.4), ncol=4, nrow=7)

    colnames(cts) <- apply(expand.grid(c('a','b'),1:2), 1, paste, collapse='_')

    x <- manta(cts, makeSampleDF(cts, group=rep(c('a','b'),2)))
    collapseRepliCounts(x, pair=c('a','b'))

[Package manta version 1.32.0 Index]