Hicks SC, Irizarry RA. (2019). Genome Biology 20, 261. https://doi.org/10.1186/s13059-019-1827-8
This is a package to estimate the cell composition of whole blood in DNA methylation measured on any platform technology (e.g. Illumina 450K microarray, whole genome bisulfite sequencing (WGBS) and reduced representation bisulfite sequencing (RRBS)).
For help with the methylCC R-package, there is a vignette available in the /vignettes folder.
The R-package methylCC can be installed from Github using the R package devtools:
Use to install the latest version of methylCC from Github:
library(devtools)
install_github("stephaniehicks/methylCC")It can also be installed using Bioconductor:
# install BiocManager from CRAN (if not already installed)
if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
# install methylCC package
BiocManager::install("methylCC")After installation, the package can be loaded into R.
library(methylCC)Report bugs as issues on the GitHub repository