data.binned {RiboDiPA} | R Documentation

## An example of binned P-sites data

### Description

A example data containing binned ribosome P-site tracks of 4 replicates on 885 genes, two biological replicates each for wild type cells and New1 mutant cells, respectively. It is the output of the data binning function `dataBinning` on P-site coverage data, and input for `diffPatternTest` function for differential pattern analysis.

### Usage

    data("data.binned")

### Format

A list of 885 matrices corresponding to 885 genes: in each matrix, rows correspond to replicates, columns correspond to bins.

### Source

The raw data was adapted from Kasari et al 2019.

### Examples

    data(data.binned)
    classlabel <- data.frame(condition = c("mutant", "mutant",
        "wildtype", "wildtype"), comparison = c(2, 2, 1, 1))
    rownames(classlabel) <- c("mutant1", "mutant2", "wildtype1", "wildtype2")
    result.pst <- diffPatternTest(data = data.binned,
        classlabel = classlabel, method = c('gtxr', 'qvalue'))

[Package RiboDiPA version 1.2.0 Index]