Deprecated: Use of this version of scanpy is deprecated. More information on our Applications Support and Retention Policy.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 1.9.1-foss-2022a
To load the module for scanpy 1.9.1-foss-2022a please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):
module load scanpy/1.9.1-foss-2022a
BEAR Apps Version
- anndata 0.8.0
- natsort 8.2.0
- scanpy 1.9.1
- session_info 1.0.0
- sinfo 0.3.4
- xlrd 2.0.1
For more information visit the scanpy website.
This version of scanpy has a direct dependency on: foss/2022a h5py/3.7.0-foss-2022a leidenalg/0.9.1-foss-2022a networkx/2.8.4-foss-2022a numba/0.56.4-foss-2022a PyTables/3.8.0-foss-2022a Python/3.10.4-GCCcore-11.3.0 scikit-learn/1.1.2-foss-2022a SciPy-bundle/2022.05-foss-2022a Seaborn/0.12.1-foss-2022a statsmodels/0.13.1-foss-2022a tqdm/4.64.0-GCCcore-11.3.0 umap-learn/0.5.3-foss-2022a
This version of scanpy is a direct dependent of: cell2location/0.1.3-foss-2022a-CUDA-11.7.0 cell2location/0.1.3-foss-2022a scvi-tools/0.20.1-foss-2022a-CUDA-11.7.0 scvi-tools/0.20.1-foss-2022a
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 27th February 2023