Bayesian modelling of cell-to-cell DNA methylation heterogeneity


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Documentation for package ‘scMET’ version 1.8.0

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scMET-package 'scMET': Bayesian modelling of DNA methylation at single-cell resolution.
bb_mle Beta binomial maximum likelihood estimation (BB MLE)
create_design_matrix Create design matrix
detect_hvf Detect highly (or lowly) variable features with scMET
detect_hvf_lvf Detect highly (or lowly) variable features with scMET
detect_lvf Detect highly (or lowly) variable features with scMET
differential_methylation, Differential testing using scMET
differential_test, Differential testing using scMET
differential_variability Differential testing using scMET
sce_to_scmet Convert from SingleCellExperiment to scmet object
scMET Perform inference with scMET
scmet Perform inference with scMET
scmet_differential Differential testing using scMET
scmet_diff_dt Synthetic methylation data from two groups of cells
scmet_dt Synthetic methylation data from a single population
scmet_hvf Detect highly (or lowly) variable features with scMET
scmet_hvf_lvf Detect highly (or lowly) variable features with scMET
scmet_lvf Detect highly (or lowly) variable features with scMET
scmet_mcmc Perform inference with scMET
scmet_plot_efdr_efnr_grid Plot EFDR/EFNR grid
scmet_plot_estimated_vs_true Plot true versus inferred parameter estimated.
scmet_plot_ma MA plot for differential analysis
scmet_plot_mean_var Plotting mean-variability relationship
scmet_plot_vf_tail_prob Plot tail probabilities for variable feature analysis
scmet_plot_volcano Volcano plot for differential analysis
scmet_simulate Simulate methylation data from scMET.
scmet_simulate_diff Simulate differential methylation data from scMET.
scmet_to_sce Convert from scmet to SingleCellExperiment object.
scmet_vb Perform inference with scMET