scanpy 1.8.1-foss-2021a

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, BEARCloud 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

Last modified on 20th May 2022