Core Utils for Mass Spectrometry Data


[Up] [Top]

Documentation for package ‘MsCoreUtils’ version 1.14.1

Help Pages

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