maxQuant {MatrixQCvis}R Documentation

Convert MaxQuant xlsx output to 'SummarizedExperiment' object

Description

The function 'maxQuant' will create a 'SummarizedExperiment' from a MaxQuant xlsx file. The function 'maxQuant' takes as input the path to a .xlsx file (MaxQuant output) and additional parameters given to the 'read.xlsx' function from the 'openxlsx' package (e.g. specifying the sheet name or index by 'sheet').

Usage

maxQuant(file, type = c("iBAQ", "LFQ"), sheet, ...)

Arguments

file

'character'

type

'character', either 'iBAQ' or 'LFQ'

sheet

'character' or 'numeric', the name or index of the sheet to read data from

...

additional parameters given to 'read.xslx'

Details

The argument 'type' will specify if the 'iBAQ' or 'LFQ' values are taken.

Value

'SummarizedExperiment' object

Examples

file <- "path/to/maxQuant/object"
maxQuant(file = file, type = "iBAQ", sheet = 1)


[Package MatrixQCvis version 1.2.2 Index]