Probabilistic Modeling of Single-cell Methylation Heterogeneity

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Documentation for package ‘vmrseq’ version 1.0.1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

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.