.datatable.aware | 'Melissa': Bayesian clustering and imputation of single cell methylomes |
binarise_files | Binarise CpG sites |
cluster_ari | Compute clustering ARI |
cluster_error | Compute clustering assignment error 'cluster_error' computes the clustering assignment error, i.e. the average number of incorrect cluster assignments: OE = sum_{n=1}^{N}(I(LT_{n} \neq LP_{n})) / N |
create_melissa_data_obj | Create methylation regions for all cells |
eval_cluster_performance | Evaluate clustering performance |
eval_imputation_performance | Evaluate imputation performance |
extract_y | Extract responses y |
filter_by_coverage_across_cells | Filtering process prior to running Melissa |
filter_by_cpg_coverage | Filtering process prior to running Melissa |
filter_by_variability | Filtering process prior to running Melissa |
filter_cpgs, | Filtering process prior to running Melissa |
filter_regions | Filtering process prior to running Melissa |
impute_met_files | Impute/predict methylation files |
impute_test_met | Impute/predict test methylation states |
init_design_matrix | Initialise design matrices |
log_sum_exp | Compute stable log-sum-exp |
Melissa | 'Melissa': Bayesian clustering and imputation of single cell methylomes |
melissa | Cluster and impute single cell methylomes using VB |
melissa_cluster, | Cluster and impute single cell methylomes using VB |
melissa_encode_dt | Synthetic ENCODE single cell methylation data |
melissa_filter | Filtering process prior to running Melissa |
melissa_gibbs | Gibbs sampling algorithm for Melissa model |
melissa_impute, | Cluster and impute single cell methylomes using VB |
melissa_synth_dt | Synthetic single cell methylation data |
melissa_vb | Cluster and impute single cell methylomes using VB |
partition_dataset | Partition synthetic dataset to training and test set |
plot_melissa_profiles | Plot predictive methylaation profiles |