ageAcceleration         Epigenetic age acceleration, intrinsic and
                        extrinsic
ageAccelerationChen     Chen-style extrinsic age acceleration with
                        data-driven weights
anti_trafo              Horvath age transformation (inverse)
as.data.frame.methylclock
                        Coerce a methylclock result to a data frame
cellCounts              Estimate blood cell-type proportions from
                        methylation
clock_catalog           Catalogue of the clocks in the package
clock_info              Look up one clock's registry entry
clock_list              List and filter registered clocks
clock_predictors        Supported prediction engines
clock_register          Register a clock
clock_registry          The clock registry
clock_reset             Clear the clock registry
clock_statuses          Availability status labels
clock_targets           Supported biological targets
clockAccuracy           How well each clock tracks chronological age
clockCoverage           CpG coverage of each clock in a dataset
clockTrajectories       Arrange repeated samples into per-subject clock
                        trajectories
compute_clocks          Estimate clocks from a methylation matrix
DNAmAge                 Estimate chronological and biological DNAm age
DNAmGA                  Estimate gestational DNAm age
EEAA                    Extrinsic epigenetic age acceleration
                        (canonical EEAA)
IEAA                    Intrinsic epigenetic age acceleration
                        (canonical IEAA)
imputeKNN               KNN-impute a methylation matrix
listCellReferences      Cell-type reference panels available for
                        deconvolution
mc_to_hdf5              Store a methylation matrix on disk as HDF5
mcd_backends            Configure the resource backend chain
mcd_cache_clear         Clear the resource cache
mcd_manifest            The resource manifest
mcd_resource            Resolve a clock resource by identifier
mcd_resource_file       Resolve a file resource to a local path
methylclock             Estimate DNA methylation clocks
methylclock_betas       Example methylation beta matrix
methylclock_cells       Clock estimates with blood cell proportions
methylclock_demo        Example clock estimates for a public blood
                        cohort
methylclock_longitudinal
                        A longitudinal example: children sampled
                        repeatedly from birth to age 3
methylclock_references
                        Clock estimates on the shipped reference
                        cohorts
methylclock_smoking     Smoking predictor scores with smoking status
methylclock_validation
                        Clock estimates on two independent validation
                        cohorts
new_methylclock         Construct a methylclock result
normalize_coef          Normalize a coefficient resource to canonical
                        form
persist                 Persist a result to a file
plotAccelerationByGroup
                        Plot epigenetic age acceleration by a sample
                        group
plotAgeAcceleration     Plot epigenetic age acceleration
plotBlandAltman         Bland-Altman plot of predicted vs.
                        chronological age
plotClockCorrelation    Heatmap of the correlation between clocks
plotClockDensities      Plot the density of each clock's estimates,
                        optionally split by a group
plotClockDistributions
                        Plot the distribution of each clock's estimates
plotDNAmAge             Plot predicted epigenetic age against
                        chronological age
plotGroupDifference     Plot the per-clock difference between two
                        groups as a forest plot
plotReferenceRange      Plot samples against the percentile bands of a
                        reference cohort
plotSampleDiscordance   Plot how much the clocks agree on each sample
plotSamplePCA           PCA of samples in clock space
plotTrajectories        Plot each subject's clock trajectory over age
qcReport                Quality-control report for clock estimates
sampleQC                Per-sample quality control
theme_methylclock       A clean theme for methylclock plots
trajectoryRates         Each subject's rate of epigenetic aging, clock
                        by clock
