scArches 0.6.1-foss-2022a

Single-cell architecture surgery (scArches) is a package for reference-based analysis of single-cell data.

Accessing scArches 0.6.1-foss-2022a

To load the module for scArches 0.6.1-foss-2022a please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load bear-apps/2022a
module load scArches/0.6.1-foss-2022a

There is a GPU enabled version of this module: scArches 0.6.1-foss-2022a-CUDA-11.7.0

BEAR Apps Version

2022a

Architectures

EL8-cascadelake — EL8-icelake — EL8-sapphirerapids

The listed architectures consist of two part: OS-CPU. The OS used is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.

Extensions

• gdown 4.7.3
• muon 0.1.6
• newick 1.0.0
• scArches 0.6.1
• scHPL 1.0.5

More Information

For more information visit the scArches website.

Dependencies

This version of scArches has a direct dependency on: BeautifulSoup/4.10.0-GCCcore-11.3.0 foss/2022a h5py/3.7.0-foss-2022a leidenalg/0.9.1-foss-2022a loompy/3.0.7-foss-2022a matplotlib/3.5.2-foss-2022a Python/3.10.4-GCCcore-11.3.0 PyTorch/1.12.1-foss-2022a scanpy/1.9.1-foss-2022a scikit-learn/1.1.2-foss-2022a SciPy-bundle/2022.05-foss-2022a scvi-tools/0.20.1-foss-2022a tqdm/4.64.0-GCCcore-11.3.0

Other Versions

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

Last modified on 20th April 2024