sesame

DOI: 10.18129/B9.bioc.sesame    

Tools For Analyzing Illumina Infinium DNA Methylation Arrays

Bioconductor version: Release (3.9)

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>

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

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

Details

biocViews DNAMethylation, MethylationArray, Preprocessing, QualityControl, Software
Version 1.2.0
In Bioconductor since BioC 3.8 (R-3.5) (1 year)
License Artistic-2.0
Depends R (>= 3.5), 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_1.2.0.tar.gz
Windows Binary sesame_1.2.0.zip
Mac OS X 10.11 (El Capitan) sesame_1.2.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/sesame
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/sesame
Package Short Url https://bioconductor.org/packages/sesame/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: