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All functions

colMeansMat() colSumsMat() aggregate_by_matrix() aggregate_by_vector()
Aggreagate quantitative features
bin()
Binning
breaks_ppm()
Sequence with increasing difference between elements
isPeaksMatrix()
Check functions
asInteger()
Coerce functions
colCounts()
Counts the number of features
ndotproduct() dotproduct() neuclidean() navdist() nspectraangle()
Spectra Distance/Similarity Measurements
entropy() nentropy()
Spectral entropy
estimateBaseline() estimateBaselineConvexHull() estimateBaselineMedian() estimateBaselineSnip() estimateBaselineTopHat()
Estimates the Baseline of a Mass Spectrum
force_sorted()
Forcing a numeric vector into a monotonously increasing sequence.
rt2numeric() rt2character() formatRt()
Format Retention Time
gnps() join_gnps()
GNPS spectrum similarity scores
group()
Grouping of numeric values by similarity
i2index()
Input parameter check for subsetting operations
impute_matrix() imputeMethods() impute_neighbour_average() impute_knn() impute_mle() impute_bpca() impute_RF() impute_mixed() impute_min() impute_MinDet() impute_MinProb() impute_QRILC() impute_zero() impute_with() impute_fun() getImputeMargin()
Quantitative mass spectrometry data imputation
localMaxima()
Local Maxima
closest() common() join()
Relaxed Value Matching
maxi()
Maximum MS Intensity Value
medianPolish()
Return the Median Polish (Robust Twoway Decomposition) of a matrix
noise()
Noise Estimation
normalizeMethods() normalize_matrix()
Quantitative data normalisation
ppm()
PPM - Parts per Million
between() `%between%`
Range helper functions
rbindFill()
Combine R Objects by Row
refineCentroids()
Refine Peak Centroids
rla() rowRla()
Calculate relative log abundances
robustSummary()
Return the Robust Expression Summary of a matrix
smooth() coefMA() coefWMA() coefSG()
Smoothing
sumi()
Summing MS Intensity Values
validPeaksMatrix()
Validation functions
valleys()
Find Peak Valleys
vapply1c() vapply1d() vapply1l()
vapply wrappers
which.first() which.last()
Which is the first/last TRUE value.