There is a newer version of scanpyScanpy 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
- anndata 0.7.8
- natsort 8.0.2
- pynndescent 0.5.5
- scanpy 1.8.2
- sinfo 0.3.4
- xlrd 1.2.0
For more information visit the scanpy website.
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
This version of scanpy is a direct dependent of: scCODA/0.1.8-foss-2021b
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.
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Last modified on 2nd December 2022