Melissa

DOI: 10.18129/B9.bioc.Melissa    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see Melissa.

Bayesian clustering and imputationa of single cell methylomes

Bioconductor version: 3.9

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>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("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")

 

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

Details

biocViews	Bayesian, Clustering, Coverage, DNAMethylation, Epigenetics, FeatureExtraction, GeneExpression, GeneRegulation, Genetics, ImmunoOncology, KEGG, RNASeq, Regression, Sequencing, SingleCell, Software
Version	1.0.0
In Bioconductor since	BioC 3.9 (R-3.6) (< 6 months)
License	GPL-3 | file LICENSE
Depends	R (>= 3.5.0), BPRMeth, GenomicRanges
Imports	data.table, parallel, ROCR, matrixcalc, clues, ggplot2, doParallel, foreach, MCMCpack, cowplot, magrittr, mvtnorm, truncnorm, assertthat, BiocStyle, stats, utils
LinkingTo
Suggests	testthat, knitr, rmarkdown
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	Melissa_1.0.0.tar.gz
Windows Binary	Melissa_1.0.0.zip
Mac OS X 10.11 (El Capitan)	Melissa_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/Melissa
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/Melissa
Package Short Url	https://bioconductor.org/packages/Melissa/
Package Downloads Report	Download Stats