ocroci/seurat repository overview

FROM rocker/r-ver:4.0.3

⁠#install needed libraries

RUN apt update &&
apt install -y libcurl4-openssl-dev libpng-dev libz-dev libtool python-dev libbz2-dev liblzma-dev libxml2-dev libssl-dev && rm -rf /var/lib/apt/lists/*

#install specific packages RUN R -e "install.packages(c('Seurat','BiocManager','devtools'),repos='http://cran.us.r-project.org⁠')"

#monocle

RUN R -e "BiocManager::install(c('BiocGenerics', 'DelayedArray', 'DelayedMatrixStats','limma','S4Vectors','SingleCellExperiment','SummarizedExperiment', 'batchelor', 'Matrix.utils'))" && R -e "devtools::install_github('cole-trapnell-lab/leidenbase')" &&
R -e "devtools::install_github('cole-trapnell-lab/monocle3')" && R -e "BiocManager::install('DESeq2')"