BEAR Applications

SpaceRanger 1.2.2-GCC-9.3.0

There is a newer version of SpaceRanger

Space Ranger is a set of analysis pipelines that process Visium spatial RNA-seq output and brightfield microscope images in order to detect tissue, align reads, generate feature-spot matrices, perform clustering and gene expression analysis, and place spots in spatial context on the slide image.

Accessing SpaceRanger 1.2.2-GCC-9.3.0

To load the module for SpaceRanger 1.2.2-GCC-9.3.0 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load SpaceRanger/1.2.2-GCC-9.3.0

BEAR Apps Version

2020b

More Information

For more information visit the SpaceRanger website.

Dependencies

This version of SpaceRanger has a direct dependency on: bcl2fastq2/2.20.0-GCC-9.3.0 GCC/9.3.0

Other Versions

These versions of SpaceRanger are available on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Last modified on 11th February 2021