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TumourMethData

A Collection of DNA Methylation Datasets for Human Tumour Samples and Matching Normal Samples


Bioconductor version: Release (3.18)

TumourMethData collects tumour methylation data from a variety of different tumour types (and also matching normal samples where available) and produced with different technologies (e.g. WGBS, RRBS and methylation arrays) and provides them as RangedSummarizedExperiments. This facilitates easy extraction of methylation data for regions of interest across different tumour types and studies.

Author: Richard Heery [aut, cre]

Maintainer: Richard Heery <richardheery at gmail.com>

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

Installation

To install this package, start R (version "4.3") and enter:


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

BiocManager::install("TumourMethData")

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("TumourMethData")
getting_tumour_methylation_from_TumourMethData HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews CancerData, ExperimentData, ExperimentHub, Homo_sapiens_Data, MethylSeqData
Version 1.0.0
License Artistic-2.0
Depends R (>= 4.2), SummarizedExperiment
Imports ExperimentHub, GenomicRanges, HDF5Array, R.utils, rhdf5
System Requirements
URL https://github.com/richardheery/TumourMethData
Bug Reports https://support.bioconductor.org/tag/TumourMethData
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Suggests ggplot2, knitr, rmarkdown
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Package Archives

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

Source Package TumourMethData_1.0.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/TumourMethData
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TumourMethData
Package Short Url https://bioconductor.org/packages/TumourMethData/
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