R: R Toolkit for Mass Spectrometry

# R Toolkit for Mass Spectrometry

## Documentation for package ‘rtms’ version 0.2.0

- DESCRIPTION file

## Help Pages

close.rtmsBrukerMCFReader | Manage an MCF reader file connection
closeBrukerMCFReader | Manage an MCF reader file connection
emptySampleSet | Generate an empty RTMS sample set
exampleSpectrum | Simple Example Spectrum
getBrukerBAFAllMetadata | Retrieve all metadata values from a Bruker BAF file
getBrukerBAFMetadata | Retrieve specific metadata values from a Bruker BAF file
getBrukerBAFSample | Extract a sample from a Bruker BAF directory
getBrukerBAFSpectrum | Extract a spectrum from a Bruker BAF directory
getBrukerMCFAllMetadata | Retrieve all metadata values from a Bruker MCF file
getBrukerMCFIndices | Get spot names and indices from a Bruker MCF file
getBrukerMCFIntensities | Retrieve peak intensities directly from an MCF file
getBrukerMCFMetadata | Retrieve specific metadata values from a Bruker BAF file
getBrukerMCFSample | Extract a sample from a Bruker MCF directory
getBrukerMCFSampleSet | Extract a sample set from a Bruker MCF directory
getBrukerMCFSpectrum | Extract a spectrum from a Bruker MCF directory
getBrukerMCFSpots | Get spot names and indices from a Bruker MCF file
getSample | Get an RTMS Sample
getSample.rtmsBrukerBAFReader | Extract a sample from a Bruker BAF directory
getSample.rtmsBrukerMCFReader | Extract a sample from a Bruker MCF directory
getSample.rtmsSpectrum | Extract a sample from an RTMS spectrum object
getSampleFromSpectrum | Extract a sample from an RTMS spectrum object
getSampleSet | Get an RTMS Sample Set
getSampleSet.rtmsBrukerMCFReader | Extract a sample set from a Bruker MCF directory
getSpectrum | Get an RTMS Spectrum
getSpectrum.rtmsBrukerBAFReader | Extract a spectrum from a Bruker BAF directory
getSpectrum.rtmsBrukerMCFReader | Extract a spectrum from a Bruker MCF directory
measureSample | Measure peaks in an RTMS sample
measureSampleSet | Measure peaks and samples in an RTMS sample set
newBrukerBAFReader | Open a Bruker single-acquisition BAF directory
newBrukerMCFReader | Open a Bruker multi-acquisition MCF directory
plotRtmsSample | Plot an RTMS sample object
plotRtmsSampleSet | Plot an RTMS sample set object
plotRtmsSpectrum | Plot an RTMS spectrum object
reopen | Reopen a reader object
reopen.rtmsBrukerMCFReader | Manage an MCF reader file connection
reopenBrukerMCFReader | Manage an MCF reader file connection
rep.rtmsSample | Functions for creating and manipulating samples and sample sets
rep.rtmsSampleSet | Functions for creating and manipulating samples and sample sets
rtmsPeak | Create an RTMS m/z Peak Object
rtmsPeakList | Create a list of RTMS m/z peak objects
rtmsSpectrum | Create a new RTMS spectrum
sampleAndSampleSet | Functions for creating and manipulating samples and sample sets
[.rtmsSampleSet | Functions for creating and manipulating samples and sample sets
[[.rtmsSampleSet | Functions for creating and manipulating samples and sample sets
[[<-.rtmsSampleSet | Functions for creating and manipulating samples and sample sets