Description

Cell Ranger ATAC is a set of analysis pipelines that process Chromium Single Cell ATAC data.

Software Category: bio

For detailed information, visit the Cell Ranger ATAC website.

Available Versions

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

module spider cellranger-atac

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

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

module spider cellranger-atac/1.2.0
ModuleVersion Module Load Command
cellranger-atac1.2.0 module load cellranger-atac/1.2.0
cellranger-atac2.0.0 module load cellranger-atac/2.0.0

Important note on mkfastq

If you are using the mkfastq subcommand, please do not load the bcl2fastq2 module. Cell Ranger ATAC 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-atac module.