Import Data from Various Mass Spectrometry Signal Processing Tools to MSstats Format

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Documentation for package ‘MSstatsConvert’ version 1.18.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

.cleanRawPD	Clean raw Proteome Discoverer data
as.data.frame.MSstatsValidated	Convert output of converters to data.frame
as.data.table.MSstatsValidated	Convert output of converters to data.table
DIANNtoMSstatsFormat	Import Diann files
DIAUmpiretoMSstatsFormat	Import DIA-Umpire files
FragPipetoMSstatsFormat	Import FragPipe files
getInputFile	Get one of files contained in an instance of 'MSstatsInputFiles' class.
getInputFile-method	Get one of files contained in an instance of 'MSstatsInputFiles' class.
MaxQtoMSstatsFormat	Import MaxQuant files
MetamorpheusToMSstatsFormat	Import Metamorpheus files
MSstatsBalancedDesign	Creates balanced design by removing overlapping fractions and filling incomplete rows
MSstatsClean	Clean files generated by a signal processing tools.
MSstatsClean-method	Clean files generated by a signal processing tools.
MSstatsConvert	MSstatsConvert: An R Package to Convert Data from Mass Spectrometry Signal Processing Tools to MSstats Format
MSstatsImport	Import files from signal processing tools.
MSstatsLogsSettings	Set how MSstats will log information from data processing
MSstatsMakeAnnotation	Create annotation
MSstatsPreprocess	Preprocess outputs from MS signal processing tools for analysis with MSstats
MSstatsSaveSessionInfo	Save session information
OpenMStoMSstatsFormat	Import OpenMS files
OpenSWATHtoMSstatsFormat	Import OpenSWATH files
PDtoMSstatsFormat	Import Proteome Discoverer files
ProgenesistoMSstatsFormat	Import Progenesis files
ProteinProspectortoMSstatsTMTFormat	Generate MSstatsTMT required input format from Protein Prospector output
SkylinetoMSstatsFormat	Import Skyline files
SpectronauttoMSstatsFormat	Import Spectronaut files