markdunning/scrna-test repository overview

A container with a set of useful Bioconductor packages to explore single-cell data in R

simpleSingleCell scRNAseq scater scran SingleCellExperiment DropletUtils org.Hs.eg.db org.Mm.eg.db TxDb.Mmusculus.UCSC.mm10.ensGene dynamicTreeCut Rtsne pheatmap limma edgeR TENxBrainData Seurat

Usage

docker run --rm -p 8787:8787 -e PASSWORD=YOUR_PASSWORD markdunning/scrna-test

To make a directory on your machine visible in the container use -v to mount

docker run --rm -p 8787:8787 -e PASSWORD=YOUR_PASSWORD -v LOCAL_DIR:/home/rstudio markdunning/scrna-test

Then open localhost:8787 in a web browser to get an RStudio instance with all the packages pre-installed