Package: rawrr 1.21.0

Christian Panse

rawrr: Direct Access to Orbitrap Data and Beyond

This package wraps the functionality of the Thermo Fisher Scientic RawFileReader .NET 8.0 assembly. Within the R environment, spectra and chromatograms are represented by S3 objects. The package provides basic functions to download and install the required third-party libraries. The package is developed, tested, and used at the Functional Genomics Center Zurich, Switzerland.

Authors:Christian Panse [aut, cre], Leonardo Schwarz [ctb], Tobias Kockmann [aut]

rawrr_1.21.0.tar.gz
rawrr_1.21.0.zip(r-4.7)rawrr_1.21.0.zip(r-4.6)rawrr_1.21.0.zip(r-4.5)
rawrr_1.21.0.tgz(r-4.6-any)rawrr_1.21.0.tgz(r-4.5-any)
rawrr_1.21.0.tar.gz(r-4.7-any)rawrr_1.21.0.tar.gz(r-4.6-any)
rawrr_1.21.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
rawrr/json (API)
NEWS

# Install 'rawrr' in R:

install.packages('rawrr', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/fgcz/rawrr/issues

On BioConductor:rawrr-1.21.0(bioc 3.24)rawrr-1.20.0(bioc 3.23)

massspectrometry proteomics metabolomics infrastructure software fast mass-spectrometry multiplatform orbitrap-ms

8.70 score 61 stars 3 packages 41 scripts 535 downloads 26 exports 0 dependencies

Last updated from:7cb330161e. Checks:1 WARNING, 7 ERROR, 2 OK. Indexed: yes.

Target	Result	Time
bioc-checks	WARNING	157
linux-devel-x86_64	ERROR	217
source / vignettes	OK	238
linux-release-x86_64	ERROR	187
macos-release-arm64	ERROR	88
macos-oldrel-arm64	ERROR	75
windows-devel	ERROR	98
windows-release	ERROR	93
windows-oldrel	ERROR	91
wasm-release	OK	113

Exports:.isAssemblyWorking .rawrrAssembly basePeak buildRawrrExe dependentScan faimsVoltageOn installRawFileReaderDLLs installRawrrExe is.rawrrChromatogram is.rawrrSpectrum is.rawrrSpectrumSet makeAccessor massRange masterScan rawrrAssemblyPath rawrrSpectrum readChromatogram readFileHeader readIndex readSpectrum readTrailer sampleFilePath scanNumber tic validate_rawrrIndex validate_rawrrSpectrum

Dependencies:

The rawrr R package - Direct Access to Orbitrap Data and Beyond

Tobias Kockmann, Christian Panse

Rendered fromrawrr.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2025-05-30
Started: 2021-02-11

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Benchmark spectra per second	.benchmark
Download and install the Thermo Fisher Scientific .NET 8.0 nupkgs	.downloadNupkgs Thermo ThermoFisher ThermoFisherScientific
URL for Thermo Fisher .NET assemblies	.thermofisherlsmsUrl
deriving area under the curve (AUC)	auc.rawrrChromatogram
Base peak of a spectrum	basePeak
Build 'rawrr.exe' console application.	buildRawrrExe
Retrieve dependent scan(s) of a scan listed in scan index	dependentScan
Is FAIMS Voltage on?	faimsVoltageOn
determine scan numbers which match a specified filter	filter
installRawFileReaderDLLs (deprecated)	installRawFileReaderDLLs
Download 'rawrr' assembly	installRawrrExe rawrr.exe
Function to check if an object is an instance of class 'rawrrChromatogram'	is.rawrrChromatogram
Function to check if an object is an instance of class 'rawrrSpectrum'	is.rawrrSpectrum
Function to check if an object is an instance of class 'rawrrSpectrumSet'	is.rawrrSpectrumSet
Make accessor function for key value pair returned by RawFileReader	makeAccessor
Acquisition/scan range of spectrum	massRange
Retrieve master scan of scan listed in scan index	masterScan
Create instances of class 'rawrrSpectrum'	new_rawrrSpectrum
Plot 'rawrrChromatogram' objects	plot.rawrrChromatogram
Plot 'rawrrChromatogramSet' objects	plot.rawrrChromatogramSet
Basic plotting function for instances of 'rawrrSpectrum'	plot.rawrrSpectrum
Print method imitate the look and feel of Thermo Fisher Scientific FreeStyle's output	print.rawrrSpectrum
Derives the path where all .NET assemblies are stored.	rawrrAssemblyPath
Create 'rawrrSpectrum' objects	rawrrSpectrum
Extracts chromatographic data from a raw file.	readChromatogram
read file header Information	readFileHeader
Read scan index	readIndex
Reads spectral data from a raw file.	rawrr readSpectrum
Read and extract scan trailer from TFS raw files.	readTrailer
A small file size 'sample.raw' BLOB	sample.raw sampleFilePath
Accessor function for scan number of 'rawrrSpectrum' objects	scanNumber
Text summary of chromatogram	summary.rawrrChromatogram
Basic summary function	summary.rawrrSpectrum
Total ion current of a spectrum	tic
Validate output of the readIndex function	validate_rawrrIndex
Validate instance of class rawrrSpectrum	validate_rawrrSpectrum