singlecellacademy/scap repository overview

⁠Introduction

This is the official Docker container for SCAP.

The source code for SCAP can be found on Github: SCAP Github repo⁠.

⁠Running SCAP using Docker

As test data, you can download the test dataset used by cellxgene from the following address:

wget https://cellxgene-example-data.czi.technology/pbmc3k.h5ad

⁠Dev container

To run the container, first pull the dev image and then run the container with exporting port 3838 and mounting the folder containing your h5ad file.

docker pull singlecellacademy/scap:dev
docker run -it -p 3838:3838 -v my_folder_with_h5ad_files:/ftp singlecellacademy/scap:dev

where my_folder_with_h5ad_files points to the folder on your system containing the h5ad files you want to use with SCAP.

⁠Stable release

For the latest stable release, run the following instead:

docker pull singlecellacademy/scap:v0.1.0
docker run -it -p 3838:3838 -v my_folder_with_h5ad_files:/ftp singlecellacademy/scap:v0.1.0

You should see the shiny app starting and you should be able to reach it via: http://localhost:3838/⁠

If you find any bugs or problems, please leave us an issue on the SCAP Github issues page⁠.