Function reference • SLINGtools

All functions

cvlog(): Coefficient of variation (CV) using log-transformed data

MidarExperiment-class: S4 Class Representing the MIDAR Dataset

MidarExperiment(): Constructor for the MidarExperiment object.

calcQC(<MidarExperiment>): Calculate QC parameters for each feature

calcQC(): calcQC generic

exportWideCSV(<MidarExperiment>): Export any parameter to a wide-format table

exportWideCSV(): exportWideCSV generic

getDatasetFilteredQC(<MidarExperiment>): Save the QC table to a CSV file

getDatasetFilteredQC(): getDatasetFilteredQC generic

import_MSOrganizerXLM(): Imports metadata provided by an MSOrganizer EXCEL template

loadMSOrganizerXLM(<MidarExperiment>): Import metadata from the MSOrganizer template (.XLM)

loadMSOrganizerXLM(): loadMSOrganizerXLM

loadMasshunterCSV(<MidarExperiment>): loadMasshunterCSV

loadMasshunterCSV(): loadMasshunterCSV

normalizeByISTD(<MidarExperiment>): Normalize Intensities with corresponding ISTD Intensities

normalizeByISTD() normalizeByISTD(): normalizeByISTD

quantitateByISTD(<MidarExperiment>): Quantitate using sample and spiked ISTD amounts

quantitateByISTD(): quantitateByISTD

read_MassHunterCSV(): Read and convert an Agilent MassHunter Quant CSV result file

read_MassHunterCSV_wide(): Reads a wide CSV file with Feature Intensities

read_plainCSV_long(): Reads a long CSV file with Feature Intensities

saveQCinfo(<MidarExperiment>): Save the QC table to a CSV file

saveQCinfo(): saveQCinfo generic

writeReportXLS(<MidarExperiment>): Writes all a data processing report to an EXCEL file

writeReportXLS(): writeReportXLS