Package index • MetaboTandem

All functions

add_canopus(): Add CANOPUS classification

apply_alignment() apply_alignment.pg() apply_alignment.ow() apply_alignment.lama(): Apply Peak alignment

apply_gap_filling(): Apply Gap Filling

apply_peak_refinement(): Apply Peak Refinement

calculate_clustering(): Multivariate analysis - Clustering

calculate_permanova(): Multivariate analysis - PERMANOVA

centroid_check(): Check Centroided

check_model(): Check model performance

apply_correspondence() apply_correspondence.pd() apply_correspondence.np(): Apply Correspondence

apply_prevalence_filtering() apply_variance_filtering() iqr_filtering() sd_filtering() mad_filtering() rsd_filtering(): Filter by prevalence

differential_analysis(): Differential analysis

extract_abundance_table(): Extract abundance table

extract_autotuner(): Extract parameters AutoTuner

extract_feature_chromatograms(): Extract feature chromatograms

extract_feature_definitions(): Extract feature definitions

extract_feature_spectra(): Extract feature spectra

fit_model() fit_model.lm() fit_model.lme(): Fit linear models

get_annotation_tables(): Get annotation tables

get_molecular_class(): Classify metabolites

load_dataframe(): Load dataframe

load_metadata(): Load Metadata

load_spectra_data(): Load Spectra Data

merge_annotation_tables(): Merge annotation tables

apply_normalization() global_norm() median_norm() mean_norm() vsn_norm() cycloess_norm() max_norm(): Normalize data

calculate_ordination() nmds_ordination() pca_ordination() pcoa_ordination(): Multivariate analysis - Ordination

plot_ordination() plot_ordination.nmds() plot_ordination.pca() plot_ordination.pcoa(): Multivariate analysis - Plot Ordination

apply_peak_picking() apply_peak_picking.cw() apply_peak_picking.mq() apply_peak_picking.mf(): Apply Peak Picking

plot_da_sig_features(): Heatmap significant features

plot_mirror(): Plot spectra annotation mirror

plot_model_sig_features(): Heatmap significant features

plot_volcano(): Volcano plot

run_app(): Run the Shiny Application

start_autotuner(): Start autotuner

test_contrasts(): Test contrasts

test_peak_picking(): Test Peak Picking