sesame

DOI: 10.18129/B9.bioc.sesame    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see sesame.

Tools For Analyzing Illumina Infinium DNA Methylation Arrays

Bioconductor version: 3.10

Tools For analyzing Illumina Infinium DNA methylation arrays.

Author: Wanding Zhou [aut, cre], Hui Shen [aut], Timothy Triche [ctb], Bret Barnes [ctb]

Maintainer: Wanding Zhou <zhouwanding 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("sesame")

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("sesame")

 

HTML	R Script	0. SeSAMe User Guide
HTML	R Script	1. Quality Controls
HTML	R Script	2. Large Data
HTML	R Script	3. Minfi Interaction
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DNAMethylation, MethylationArray, Preprocessing, QualityControl, Software
Version	1.4.0
In Bioconductor since	BioC 3.8 (R-3.5) (1.5 years)
License	MIT + file LICENSE
Depends	R (>= 3.6), sesameData, methods
Imports	BiocParallel, R6, grDevices, utils, illuminaio, MASS, GenomicRanges, IRanges, grid, preprocessCore, stats, S4Vectors, randomForest, wheatmap, ggplot2, parallel, matrixStats, DNAcopy
LinkingTo
Suggests	scales, knitr, rmarkdown, testthat, minfi, SummarizedExperiment, FlowSorted.CordBloodNorway.450k, FlowSorted.Blood.450k, dplyr, tidyr, BiocStyle
SystemRequirements
Enhances
URL	https://github.com/zwdzwd/sesame
BugReports	https://github.com/zwdzwd/sesame/issues
Depends On Me
Imports Me	TCGAbiolinksGUI
Suggests Me	sesameData, TCGAbiolinks
Links To Me
Build Report

Package Archives

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

Source Package	sesame_1.4.0.tar.gz
Windows Binary	sesame_1.4.0.zip
Mac OS X 10.11 (El Capitan)	sesame_1.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/sesame
Source Repository (Developer Access)	git clone [email protected]:packages/sesame
Package Short Url	https://bioconductor.org/packages/sesame/
Package Downloads Report	Download Stats