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Melissa

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

Bayesian clustering and imputationa of single cell methylomes


Bioconductor version: Development (3.19)

Melissa is a Baysian probabilistic model for jointly clustering and imputing single cell methylomes. This is done by taking into account local correlations via a Generalised Linear Model approach and global similarities using a mixture modelling approach.

Author: C. A. Kapourani [aut, cre]

Maintainer: C. A. Kapourani <kapouranis.andreas at gmail.com>

Citation (from within R, enter citation("Melissa")):

Installation

To install this package, start R (version "4.4") and enter:


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

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

BiocManager::install("Melissa")

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("Melissa")
1: Process and filter scBS-seq data HTML R Script
2: Cluster and impute scBS-seq data using Melissa HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews Bayesian, Clustering, Coverage, DNAMethylation, Epigenetics, FeatureExtraction, GeneExpression, GeneRegulation, Genetics, ImmunoOncology, KEGG, RNASeq, Regression, Sequencing, SingleCell, Software
Version 1.19.0
In Bioconductor since BioC 3.9 (R-3.6) (5 years)
License GPL-3 | file LICENSE
Depends R (>= 3.5.0), BPRMeth, GenomicRanges
Imports data.table, parallel, ROCR, matrixcalc, mclust, ggplot2, doParallel, foreach, MCMCpack, cowplot, magrittr, mvtnorm, truncnorm, assertthat, BiocStyle, stats, utils
System Requirements
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Suggests testthat, knitr, rmarkdown
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Package Archives

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

Source Package Melissa_1.19.0.tar.gz
Windows Binary Melissa_1.19.0.zip
macOS Binary (x86_64) Melissa_1.19.0.tgz
macOS Binary (arm64) Melissa_1.19.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/Melissa
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Melissa
Bioc Package Browser https://code.bioconductor.org/browse/Melissa/
Package Short Url https://bioconductor.org/packages/Melissa/
Package Downloads Report Download Stats