scrnaseq

A docker image for running the single cell RNA pipeline Rscript simple_scrnaseq.R. The pipeline is inspired by (https://satijalab.org/seurat/) and suitable for analysing droplet-based Genomics 10X data. The docker image should work on desirable dataset. You can test it on test_data.tar.gz (added to this repository).

The docker image can be run by:

docker run -it -d [data] -o [output directory] scrnaseq

Please specify

• your input data directory
• and the desirable output file.

NOTE: The docker image can be downloaded from Docker Hub.