bixbeta/sv5nf repository overview

FROM docker.io/bixbeta/seurat5:v3

# Set the working directory to be used when the docker gets run
WORKDIR /

# Install R packages
RUN R -e 'install.packages("devtools")' \
&& R -e 'devtools::install_github("ncborcherding/Trex")'

RUN apt-get install -y libcairo2-dev
RUN apt-get install -y libxt-dev
RUN R -e 'install.packages("Cairo")'

RUN wget https://github.com/jgm/pandoc/releases/download/3.5/pandoc-3.5-1-amd64.deb 
RUN sudo dpkg -i pandoc-3.5-1-amd64.deb 

RUN apt-get -y update && apt-get install -y  libudunits2-dev libgdal-dev libgeos-dev libproj-dev
 

RUN R -e "install.packages('sf')"
RUN R -e "devtools::install_github('VPetukhov/ggrastr', build_vignettes = F)"
RUN R -e 'BiocManager::install("scater")'
RUN R -e 'BiocManager::install("scDblFinder")'