methylCC
This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see methylCC.
Estimate the cell composition of whole blood in DNA methylation samples
Bioconductor version: 3.10
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("methylCC")):
Installation
To install this package, start R (version "3.6") 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 qsmooth user's guide | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DNAMethylation, MethylSeq, MethylationArray, Microarray, Sequencing, Software, WholeGenome |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.10 (R-3.6) (4.5 years) |
| License | CC BY 4.0 |
| 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 | 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_1.0.0.tar.gz |
| Windows Binary | methylCC_1.0.0.zip |
| Mac OS X 10.11 (El Capitan) | methylCC_1.0.0.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 |
| Old Source Packages for BioC 3.10 | Source Archive |