scanpy 1.8.2-foss-2021b

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 1.8.2-foss-2021b

To load the module for scanpy 1.8.2-foss-2021b please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load scanpy/1.8.2-foss-2021b

BEAR Apps Version

2020h

Extensions

  • anndata 0.7.8
  • natsort 8.0.2
  • pynndescent 0.5.5
  • scanpy 1.8.2
  • sinfo 0.3.4
  • stdlib-list-0.8.0
  • umap-learn-0.5.2
  • xlrd 1.2.0

More Information

For more information visit the scanpy website.

Dependencies

This version of scanpy has a direct dependency on: foss/2021b h5py/3.6.0-foss-2021b leidenalg/0.8.8-foss-2021b networkx/2.6.3-foss-2021b numba/0.54.1-foss-2021b PyTables/3.6.1-foss-2021b Python/3.9.6-GCCcore-11.2.0 scikit-learn/1.0.1-foss-2021b SciPy-bundle/2021.10-foss-2021b Seaborn/0.11.2-foss-2021b statsmodels/0.13.1-foss-2021b tqdm/4.62.3-GCCcore-11.2.0

Required By

This version of scanpy is a direct dependent of: scCODA/0.1.8-foss-2021b

Other Versions

These versions of scanpy 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 2nd December 2022