methPLIER

R package for DNA methylation data analysis using NMF with sparse regularization

Installation

Option 1: Install local

# Install remotes from CRAN
install.packages("remotes")

# Pre-requiring package install
if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

remotes::install_github("wgmao/PLIER")

# Install methPLIER
remotes::install_github("hamamoto-lab/methPLIER")

Option 2: Docker

# build docker image from Dockerfile
docker build -t methplier:0.9 .

# run docker image (i.e. password as "methPLIER")
docker run --rm -it -e PASSWORD=methPLIER -p 8787:8787 --name methplier methplier:0.9

Access to localhost:8787 on web browser

	default value
username	rstudio
password	methPLIER

What the 'methPLIER' can do.

Download figshare data

download dataset from figshare and put it in data directory

Citation

License

MIT License