conumee
Enhanced copy-number variation analysis using Illumina DNA methylation arrays
Bioconductor version: Release (3.19)
This package contains a set of processing and plotting methods for performing copy-number variation (CNV) analysis using Illumina 450k or EPIC methylation arrays.
Author: Volker Hovestadt, Marc Zapatka
Maintainer: Volker Hovestadt <conumee at hovestadt.bio>
Citation (from within R, enter
citation("conumee")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("conumee")
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("conumee")| conumee | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | CopyNumberVariation, DNAMethylation, MethylationArray, Microarray, Normalization, Preprocessing, QualityControl, Software |
| Version | 1.38.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (9.5 years) |
| License | GPL (>= 2) |
| Depends | R (>= 3.5.0), minfi, IlluminaHumanMethylation450kanno.ilmn12.hg19, IlluminaHumanMethylation450kmanifest, IlluminaHumanMethylationEPICanno.ilm10b2.hg19, IlluminaHumanMethylationEPICmanifest |
| Imports | methods, stats, DNAcopy, rtracklayer, GenomicRanges, IRanges, GenomeInfoDb |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, knitr, rmarkdown, minfiData, RCurl |
| 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 | conumee_1.38.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | conumee_1.38.0.tgz |
| macOS Binary (arm64) | conumee_1.38.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/conumee |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/conumee |
| Bioc Package Browser | https://code.bioconductor.org/browse/conumee/ |
| Package Short Url | https://bioconductor.org/packages/conumee/ |
| Package Downloads Report | Download Stats |