scanpy 1.8.1-foss-2021a

There is a newer version of scanpy

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 1.8.1-foss-2021a

To load the module for scanpy 1.8.1-foss-2021a please use this command on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs):

module load scanpy/1.8.1-foss-2021a

BEAR Apps Version



  • anndata 0.7.6
  • natsort 7.1.1
  • pynndescent 0.5.4
  • scanpy 1.8.1
  • sinfo 0.3.4
  • stdlib-list-0.8.0
  • umap-learn-0.5.1
  • xlrd 1.2.0

More Information

For more information visit the scanpy website.


This version of scanpy has a direct dependency on: foss/2021a h5py/3.2.1-foss-2021a leidenalg/0.8.7-foss-2021a networkx/2.5.1-foss-2021a numba/0.53.1-foss-2021a PyTables/3.6.1-foss-2021a Python/3.9.5-GCCcore-10.3.0 scikit-learn/0.24.2-foss-2021a SciPy-bundle/2021.05-foss-2021a Seaborn/0.11.2-foss-2021a statsmodels/0.12.2-foss-2021a tqdm/4.61.2-GCCcore-10.3.0

Required By

This version of scanpy is a direct dependent of: scVelo/0.2.4-foss-2021a

Other Versions

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

Last modified on 20th May 2022