funtooNorm
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see funtooNorm.
Normalization Procedure for Infinium HumanMethylation450 BeadChip Kit
Bioconductor version: 3.9
Provides a function to normalize Illumina Infinium Human Methylation 450 BeadChip (Illumina 450K), correcting for tissue and/or cell type.
Author: Celia Greenwood <celia.greenwood at mcgill.ca>,Stepan Grinek <stepan.grinek at ladydavis.ca>, Maxime Turgeon <maxime.turgeon at mail.mcgill.ca>, Kathleen Klein <kathleen.klein at mail.mcgill.ca>
Maintainer: Kathleen Klein <kathleen.klein at mail.mcgill.ca>
citation("funtooNorm")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("funtooNorm")
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("funtooNorm")| Normalizing Illumina Infinium Human Methylation 450k for multiple cell types with funtooNorm | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DNAMethylation, Normalization, Preprocessing, Software |
| Version | 1.8.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (7 years) |
| License | GPL-3 |
| Depends | R (>= 3.4) |
| Imports | pls, matrixStats, minfi, methods, IlluminaHumanMethylation450kmanifest, IlluminaHumanMethylation450kanno.ilmn12.hg19, GenomeInfoDb, grDevices, graphics, stats |
| System Requirements | |
| URL |
See More
| Suggests | prettydoc, minfiData, 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 | funtooNorm_1.8.0.tar.gz |
| Windows Binary | funtooNorm_1.8.0.zip |
| Mac OS X 10.11 (El Capitan) | funtooNorm_1.8.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/funtooNorm |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/funtooNorm |
| Bioc Package Browser | https://code.bioconductor.org/browse/funtooNorm/ |
| Package Short Url | https://bioconductor.org/packages/funtooNorm/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |