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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("wateRmelon")
In most cases, you don't need to download the package archive at all.
wateRmelon
Illumina 450 methylation array normalization and metrics
Bioconductor version: 2.14
15 flavours of betas and three performance metrics, with methods for objects produced by methylumi, minfi and IMA packages.
Author: Leonard C Schalkwyk, Ruth Pidsley, Chloe CY Wong, with functions contributed by Nizar Touleimat, Matthieu Defrance, Andrew Teschendorff, Jovana Maksimovic
Maintainer: Leo <Leonard.Schalkwyk at kcl.ac.uk>
Citation (from within R,
enter citation("wateRmelon")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("wateRmelon")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("wateRmelon")
| R Script | Package | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | DNAMethylation, Microarray, Preprocessing, QualityControl, Software, TwoChannel |
| Version | 1.4.0 |
| In Bioconductor since | BioC 2.12 (R-3.0) |
| License | GPL-3 |
| Depends | R (>= 2.10), limma, methods, matrixStats, methylumi, lumi, IlluminaHumanMethylation450k.db, ROC |
| Imports | |
| Suggests | RPMM |
| System Requirements | |
| URL | |
| Depends On Me | |
| Imports Me | ChAMP |
| Suggests Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | wateRmelon_1.4.0.tar.gz |
| Windows Binary | wateRmelon_1.4.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | wateRmelon_1.4.0.tgz |
| Mac OS X 10.9 (Mavericks) | wateRmelon_1.4.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
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