Melissa

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see Melissa.

Bayesian clustering and imputationa of single cell methylomes

Bioconductor version: 3.13

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 "4.1") and enter:


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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Bayesian, Clustering, Coverage, DNAMethylation, Epigenetics, FeatureExtraction, GeneExpression, GeneRegulation, Genetics, ImmunoOncology, KEGG, RNASeq, Regression, Sequencing, SingleCell, Software

Version 1.8.0

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

URL

Suggests testthat, knitr, rmarkdown

Linking To

Enhances

Depends On Me

Imports Me

Suggests Me

Links To Me

Build Report Build Report

Package Archives

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

Source Package Melissa_1.8.0.tar.gz

Windows Binary Melissa_1.8.0.zip

macOS 10.13 (High Sierra) Melissa_1.8.0.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

Old Source Packages for BioC 3.13 Source Archive