scanpy 1.9.8-foss-2024a

Scanpy is a scalable toolkit for analyzing single-cell gene expression data built jointly with anndata. It includes preprocessing, visualization, clustering, trajectory inference and differential expression testing. The Python-based implementation efficiently deals with datasets of more than one million cells.

Accessing scanpy 1.9.8-foss-2024a

To load the module for scanpy 1.9.8-foss-2024a please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load bear-apps/2024a
module load scanpy/1.9.8-foss-2024a

BEAR Apps Version

2024a

Architectures

EL8-emeraldrapids — EL8-icelake — EL8-sapphirerapids

The listed architectures consist of two parts: 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

• joblib 1.3.2
• legacy_api_wrap 1.4
• natsort 8.4.0
• packaging 23.2
• scanpy 1.9.8
• session-info-1.0.0
• stdlib_list 0.10.0

More Information

For more information visit the scanpy website.

Dependencies

This version of scanpy has a direct dependency on: anndata/0.10.9-foss-2024a foss/2024a h5py/3.12.1-foss-2024a matplotlib/3.9.2-gfbf-2024a networkx/3.4.2-gfbf-2024a numba/0.60.0-foss-2024a Python/3.12.3-GCCcore-13.3.0 Python-bundle-PyPI/2024.06-GCCcore-13.3.0 scikit-learn/1.5.2-gfbf-2024a SciPy-bundle/2024.05-gfbf-2024a Seaborn/0.13.2-gfbf-2024a statsmodels/0.14.4-gfbf-2024a tqdm/4.66.5-GCCcore-13.3.0 umap-learn/0.5.7-foss-2024a

Required By

This version of scanpy is a direct dependent of: CeleScope/2.9.0-foss-2024a

Other Versions

These versions of scanpy 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 28th November 2025