Description

A set of analysis piplines that perform sample demultiplexing, barcode processing, and single cell 3' gene counting.

Software Category: URL: https://www.10xgenomics.com/

For detailed information, visit the Cell Ranger website.

Available Versions

To find the available versions and learn how to load them, run:

module spider cellranger

The output of the command shows the available Cell Ranger module versions.

For detailed information about a particular Cell Ranger module, including how to load the module, run the module spider command with the module’s full version label. For example:

module spider cellranger/4.0.0
ModuleVersionModule Load Command
cellranger4.0.0module load cellranger/4.0.0
cellranger5.0.0module load cellranger/5.0.0
cellranger6.0.1module load cellranger/6.0.1
cellranger7.0.1module load cellranger/7.0.1

Important note on mkfastq

If you are using the mkfastq subcommand, please do not load the bcl2fastq2 module. Cell Ranger requires a statically linked binary of bcl2fastq, whereas the bcl2fastq2 module provides a dynamically linked binary. We have prepared a separate statically linked bcl2fastq, which will be made available to you automatically upon loading the cellranger module.