ProcessWizard: ProcessWizard.

Description Usage Arguments

View source: R/Process.R

Description

Imports and process MSI data using a friendly GUI. Various images can be loaded and processed with a single execution. Data can be in XMASS, tar (rMSI) or imzML format. Processed data will be saved in a user specified directory. The applied processing consists in: - Label-free aligment (various iterations can be performed, zero iterations means no alignment). - Peak-picking. - Peak-binning. - Mass calibration with internal reference compounds. Processed data includes: - a .tar file with the processed data. - a rMSIproc formated matrices with binned peaks. - a plain text file with used processing parameters.

Usage

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ProcessWizard(
  deleteRamdisk = T,
  overwriteRamdisk = F,
  calibrationSpan = 0.75,
  store_binsize_txt_file = F
)

Arguments

deleteRamdisk

if the used ramdisks for MS images must be deleted for each image processing (will be deleted after saving it to .tar file).

overwriteRamdisk

if the current ramdisk must be overwrited.

calibrationSpan

the used span in the loess fitting for mass calibration.

store_binsize_txt_file

if the binSize used in each binning column must be soterd in a text file.


prafols/rMSIproc documentation built on Dec. 12, 2021, 7:31 p.m.