# MALDI Mass Spectrometry Data Robust Pre-Processing and Analysis

## Documentation for package ‘MALDIrppa’ version 1.0.1

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

## Help Pages

MALDIrppa-package | MALDI mass spectra robust pre-processing and analysis
addMetadata | Add metadata to 'AbstractMassObject' class objects
alignPeaks | Compact peak alignment process for 'MassPeaks' objects
countPeaks | Count the number of peaks in 'MassPeaks' objects
deletePeaks | Delete peaks from a 'MassPeaks' objects
detectOutliers | Detection of outlying mass peak profiles
importSpectra | Convert mass spectra from text files into 'MassSpectrum' objects
MALDIrppa | MALDI mass spectra robust pre-processing and analysis
peakPatterns | Display peak presence/absence patterns
plot.scSpectra | Graphical summary of 'screenSpectra' objects
rawToPeaks | Create list of 'MassPeaks' objects
rawToSpectra | Create list of 'MassSpectrum' objects
redResolution | Reduce resolution of 'MassSpectrum' objects
screenSpectra | Identification of potentially low-quality raw mass spectra
snrPeaks | Extract signal-to-noise ratio thresholds from 'MassPeaks' objects
spectra | Example mass spectra profiles
summary.scSpectra | Numerical summary of 'screenSpectra' objects
summaryPeaks | Summary of mass peak profiles
summarySpectra | Summary of mass spectra
transfIntensity | Transform intensity of 'MassSpectrum' objects
type | Example mass spectra metadata
wavSmoothing | Discrete wavelet transformation for 'MassSpectrum' objects
writeIntensity | Write intensity matrix in different formats
writeMetadata | Write metadata in different formats