convert4mapDIA: Convert table into the format for mapDIA
In SWATH2stats: Transform and Filter SWATH Data for Statistical Packages

Description Usage Arguments Value Note Author(s) References Examples

This functions selects the columns necessary for mapDIA.

1	convert4mapDIA(data, RT = FALSE)

`data`	A data frame containing SWATH data.
`RT`	Option to export the retention times.

Returns a data frame in the appropriate format for mapDIA.

The table must not contain any technical replica, the intensity of technical replica is averaged. This function requires the package reshape2.

Peter Blattmann

Teo, G., et al. (2015). "mapDIA: Preprocessing and statistical analysis of quantitative proteomics data from data independent acquisition mass spectrometry." J Proteomics 129: 108-120.

{
 data("OpenSWATH_data", package="SWATH2stats")
 data("Study_design", package="SWATH2stats")
 data <- sample_annotation(OpenSWATH_data, Study_design)
 data.filtered.decoy <- filter_mscore(data, 0.01)
 raw <- disaggregate(data.filtered.decoy)
 data.mapDIA <- convert4mapDIA(raw, RT=TRUE)
 }