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Bioconductor - vmrseq (development version)

vmrseq

This is the development version of vmrseq; for the stable release version, see vmrseq.

Probabilistic Modeling of Single-cell Methylation Heterogeneity

Bioconductor version: Development (3.22)

High-throughput single-cell measurements of DNA methylation allows studying inter-cellular epigenetic heterogeneity, but this task faces the challenges of sparsity and noise. We present vmrseq, a statistical method that overcomes these challenges and identifies variably methylated regions accurately and robustly.

Author: Ning Shen [aut, cre]

Maintainer: Ning Shen <ning.shen.wk at gmail.com>

Citation (from within R, enter citation("vmrseq")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("vmrseq")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("vmrseq")
Analyzing single-cell bisulfite sequencing data with vmrseq HTML R Script Reference Manual PDF NEWS Text LICENSE Text Details biocViews DNAMethylation, Epigenetics, ImmunoOncology, Sequencing, SingleCell, Software, WholeGenome Version 1.1.1 In Bioconductor since BioC 3.21 (R-4.5) (< 6 months) License MIT + file LICENSE Depends R (>= 4.5.0) Imports bumphunter, dplyr, BiocParallel, DelayedArray, GenomicRanges, ggplot2, methods, tidyr, locfit, gamlss.dist, recommenderlab, HDF5Array, data.table, SummarizedExperiment, IRanges, S4Vectors, devtools System Requirements URL https://github.com/nshen7/vmrseq Bug Reports https://github.com/nshen7/vmrseq/issues See More Package Archives

Follow Installation instructions to use this package in your R session.

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