Cellranger
Cell Ranger is a set of analysis pipelines that process Chromium single-cell data to align reads, generate feature-barcode matrices, perform clustering and other secondary analysis, and more. Cell Ranger includes four pipelines relevant to the 3' Single Cell Gene Expression Solution and related products.
More information can be found on their website.
Loading
Loading
module load cellranger
Testing
Testing
$ cellranger testrun --id=tiny
Martian Runtime - v4.0.4
2021-05-17 10:52:16 [jobmngr] WARNING: configured to use 84GB of local memory, but only 71.8GB is currently available.
Serving UI at http://hpc3:46470?auth=7gAU3beI72aJPjicTKXHXPDEDagvgDctGE_6nghDhm8
...
Waiting 6 seconds for UI to do final refresh.
Pipestance completed successfully!
2021-05-17 10:54:17 Shutting down.