LipidomicsExperiment    Constructor for Lipidomics experiment from list
                        of assays
LipidomicsExperiment-class
                        LipidomicsExperiment object
add_sample_annotation   Add sample annotation to Skyline data frame
annotate_lipids         Parse molecule names to extract lipid class and
                        chain information.
as_lipidomics_experiment
                        Convert data.frame/matrix to
                        LipidomicsExperiment
data_normalized         Example dataset (normalized and log2
                        transformed)
de_analysis             Differential analysis of lipids between sample
                        groups
filter_by_cv            Remove molecules with CV larger that a
                        threshold
gen_lipidsets           Generate lipid sets from lipid molecule names
impute_na               Impute missing values in a LipidomicsExperiment
is_logged               Functions to get and set attributes of
                        LipidomicsExperiment objects
lipidDefaults           Default values for lipidr internal functions A
                        set of default mappings and annotation used
                        internally to correctly parse lipid molecule
                        names.
lipidnames_pattern      Patterns used in parsing lipid names
lipidr-data             Description of lipidr datasets
lipidr-package          Analysis workflow for targeted lipidomics
list_mw_studies         Metabolomics Workbench integration
lsea                    Lipid set enrichment analysis (LSEA)
mva                     Perform multivariate analyses to investigate
                        sample clustering
non_parsed_molecules    Get a list of molecules that couldn't be parsed
                        by 'lipidr'
normalize_istd          Normalize each class by its corresponding
                        internal standard(s).
normalize_pqn           Perform Probabilistic Quotient Normalization
                        for intensities.
plot_chain_distribution
                        Plot logFC of lipids per class showing chain
                        information
plot_heatmap            Plot an annotated heatmap Plots a
                        hierarchically clustered heatmap showing
                        selected sample and lipid molecule annotations.
plot_lipidclass         Informative plots to investigate lipid classes
plot_molecules          Informative plots to investigate individual
                        lipid molecules
plot_samples            Informative plots to investigate samples
plot_trend              Plot a regulation trend line between logFC and
                        chain annotation
read_skyline            Read Skyline exported files
remove_non_parsed_molecules
                        Remove molecules that couldn't be parsed by
                        'lipidr' from the dataset
summarize_transitions   Summarize transitions
update_molecule_names   Rename molecules in a dataset.
use_interactive_graphics
                        Activate interactive graphics
