# Mathematical Utilities for MALDI-TOF Mass Spectrometry

## Documentation for package ‘MALDIassist’ version 1.0.2

- DESCRIPTION file

## Help Pages

MALDIassist-package | MALDIassist: Mathematical utilities for MALDI-TOF mass spectrometry
align_spectra | Alignment of MALDI-TOF Spectra to Internal Standards
build_kde_spectra | Build a Gaussian KDE-Smoothed Spectrum
build_kde_spectrum | Build a Gaussian KDE-Smoothed Spectrum
build_matched_matrix | Build a Sample-by-Marker Peak Intensity Matrix
calculate_peak_prominence | Calculate Peak Prominence
estimate_peak_strength | Estimate Peak Strength
estimate_significance | Estimate Significant m/z Features Between Two Groups
filter_overlap_mz | Filter Overlapping Frequent m/z Features
filter_peaks | Filter Detected Peaks Using Intensity, Prominence, and Peak Strength
filter_peaks_spectra | Filter Detected Peaks Using Intensity, Prominence, and Peak Strength
find_extrema | Find Local Extrema from First and Second Derivative Functions
find_extrema_fast | Fast Local Extrema Detection by Sign Changes
find_frequent_mz | Find Frequent m/z Values from a List of Peak Tables
find_peaks | Detect Ordinary Peaks and Shoulder Peaks Using Weighted Curvature
find_peaks_fast | Fast Local Peak Detection from a Mass Spectrum
find_peaks_spectra | Detect Ordinary Peaks and Shoulder Peaks Using Weighted Curvature
find_peaks_spectra_fast | Fast Local Peak Detection from a Mass Spectrum
get_curvature_fun | Create a Curvature Function from First and Second Derivative Functions
get_gauss_kde | Create a Gaussian KDE Function for a Mass Spectrum
heatmap_matched_matrix | Heatmap of a Sample-by-Marker Matched-Peak Matrix
load_maldi_spectra | Load Bruker MALDI-TOF MS Spectra
MALDIassist | MALDIassist: Mathematical utilities for MALDI-TOF mass spectrometry
match_peaks | Match Detected Peaks to Reference m/z Values
preprocess_maldi_spectra | Preprocess MALDI-TOF Mass Spectra
smooth_savitzky_golay | Smooth a Spectrum Using the Savitzky-Golay Filter
subtract_baseline | Subtract Baseline from a Mass Spectrum
visualize_spectra | Visualize One or More Overlaid Mass Spectra
visualize_spectrum | Visualize a Single Mass Spectrum with Optional Peak Segments