reduceXICs: Subset an XIC file

In shubham1637/DIAlignR: Dynamic Programming Based Alignment of MS2 Chromatograms

Subset an XIC file

Description

Create a sqMass file that has chromatograms for given native IDs.

Usage

reduceXICs(nativeIDs, xicFileIn, xicFileOut)

Arguments

nativeIDs	(integer) transition IDs to be kept.
xicFileIn	(character) name to the current file.
xicFileOut	(character) name of the new file.

Value

(None)

Author(s)

Shubham Gupta, [e-mail]

ORCID: 0000-0003-3500-8152

License: (c) Author (2022) + GPL-3 Date: 2022-04-19

See Also

createSqMass, getNativeIDs

Examples

dataPath <- system.file("extdata", package = "DIAlignR")
oswIn <- file.path(dataPath, "osw", "merged.osw")
params <- paramsDIAlignR()
params[["context"]] <- "experiment-wide"
ids <- getNativeIDs(oswIn, 1338L, params)
xicFileIn <- file.path(dataPath, "xics", "hroest_K120809_Strep0%PlasmaBiolRepl2_R04_SW_filt.chrom.sqMass")
reduceXICs(ids, xicFileIn, xicFileOut = "temp.chrom.sqMass")
file.remove("temp.chrom.sqMass")

shubham1637/DIAlignR documentation built on March 29, 2023, 8:45 p.m.