methylCC
Estimate the cell composition of whole blood in DNA methylation samples
Bioconductor version: Release (3.19)
A tool to estimate the cell composition of DNA methylation whole blood sample measured on any platform technology (microarray and sequencing).
Author: Stephanie C. Hicks [aut, cre] , Rafael Irizarry [aut]
Maintainer: Stephanie C. Hicks <shicks19 at jhu.edu>
Citation (from within R, enter
citation("methylCC")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("methylCC")
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("methylCC")
The methylCC user's guide | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | DNAMethylation, MethylSeq, MethylationArray, Microarray, Sequencing, Software, WholeGenome |
Version | 1.18.0 |
In Bioconductor since | BioC 3.10 (R-3.6) (5 years) |
License | GPL-3 |
Depends | R (>= 3.6), FlowSorted.Blood.450k |
Imports | Biobase, GenomicRanges, IRanges, S4Vectors, dplyr, magrittr, minfi, bsseq, quadprog, plyranges, stats, utils, bumphunter, genefilter, methods, IlluminaHumanMethylation450kmanifest, IlluminaHumanMethylation450kanno.ilmn12.hg19 |
System Requirements | |
URL | https://github.com/stephaniehicks/methylCC/ |
Bug Reports | https://github.com/stephaniehicks/methylCC/ |
See More
Suggests | rmarkdown, knitr, testthat (>= 2.1.0), BiocGenerics, BiocStyle, tidyr, ggplot2 |
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 | methylCC_1.18.0.tar.gz |
Windows Binary | methylCC_1.18.0.zip |
macOS Binary (x86_64) | methylCC_1.18.0.tgz |
macOS Binary (arm64) | methylCC_1.18.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/methylCC |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/methylCC |
Bioc Package Browser | https://code.bioconductor.org/browse/methylCC/ |
Package Short Url | https://bioconductor.org/packages/methylCC/ |
Package Downloads Report | Download Stats |