Package index
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colMeansMat()colSumsMat()aggregate_by_matrix()aggregate_by_vector() - Aggreagate quantitative features
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bin() - Binning
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breaks_ppm() - Sequence with increasing difference between elements
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isPeaksMatrix() - Check functions
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asInteger() - Coerce functions
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colCounts() - Counts the number of features
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common_path() - Extract the common file path
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ndotproduct()dotproduct()neuclidean()navdist()nspectraangle() - Spectra Distance/Similarity Measurements
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entropy()nentropy() - Spectral entropy
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estimateBaseline()estimateBaselineConvexHull()estimateBaselineMedian()estimateBaselineSnip()estimateBaselineTopHat() - Estimates the Baseline of a Mass Spectrum
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force_sorted() - Forcing a numeric vector into a monotonously increasing sequence.
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rt2numeric()rt2character()formatRt() - Format Retention Time
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gnps_r()join_gnps_r()join_gnps()gnps() - GNPS spectrum similarity scores
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gnps_chain_dp() - Optimized GNPS Modified Cosine Similarity via Chain-DP
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group() - Grouping of numeric values by similarity
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i2index() - Input parameter check for subsetting operations
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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
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localMaxima() - Local Maxima
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closest()common()join() - Relaxed Value Matching
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maxi() - Maximum MS Intensity Value
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medianPolish() - Return the Median Polish (Robust Twoway Decomposition) of a matrix
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noise() - Noise Estimation
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normalizeMethods()normalize_matrix() - Quantitative data normalisation
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ppm() - PPM - Parts per Million
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between()`%between%` - Range helper functions
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rbindFill() - Combine R Objects by Row
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reduce() - Reduce overlapping numeric ranges to disjoined ranges
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refineCentroids() - Refine Peak Centroids
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retry() - Retry expression on failure
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rla()rowRla() - Calculate relative log abundances
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robustSummary() - Return the Robust Expression Summary of a matrix
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smooth()coefMA()coefWMA()coefSG() - Smoothing
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sumi() - Summing MS Intensity Values
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validPeaksMatrix() - Validation functions
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valleys() - Find Peak Valleys
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vapply1c()vapply1d()vapply1l() - vapply wrappers
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which.first()which.last() - Which is the first/last TRUE value.