# Probabilistic Modeling of Single-cell Methylation Heterogeneity

## Documentation for package ‘vmrseq’ version 1.5.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

cell_1 | cell_1
cell_2 | cell_2
cell_3 | cell_3
HDF5NAdrop2matrix | Coerce a NA-dropped HDF5 matrix back to regular matrix form where NAs are not dropped to 0.
poolData | Pool single-cell file together into an HDF5-based SummarizedExperiment object with sparse matrix representation.
regionSummary | Compute regional methylation information for individual cells.
toy.gr | toy.gr
toy.results | toy.results
tpEstimate | Estimate transition probilities conditioning on CpG-CpG distance
tpPlot | Plot transition probability distribution
vmrseqFit | Construct candidate regions and detect variably methylated regions.
vmrseqOptimControl | Auxiliary function as user interface for vmrseq optimization.
vmrseqSmooth | Smoothing on single-cell bisulfite sequencing data for the purpose of constructing candidate regions.