Peak Matrix Processing and signal batch correction for metabolomics datasets


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Documentation for package ‘pmp’ version 1.6.0

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filter_peaks_by_blank Filter features by blank samples
filter_peaks_by_fraction Filter features by fraction of missing values
filter_peaks_by_rsd Filter features by RSD% of QC samples
filter_samples_by_mv Filter samples by missing values
glog_plot_optimised_lambda Plot SSE error of lambda optimisation process
glog_transformation Variance stabilising generalised logarithm (glog) transformation
MTBLS79 Direct-infusion mass spectrometry (DIMS) data set
mv_imputation Missing value imputation using different algorithms
normalise_to_sum Normalisation by total sum of the features per sample
pqn_normalisation Probabilistic quotient normalisation (PQN)
processing_history Return history of applied functions and argument from pmp package.
QCRSC Quality Control-Robust Spline Correction (QC-RSC)
remove_peaks Remove features from peak intensity matrix
sbc_plot Plot QCRSC corrected outputs