BEAR Applications

scvi-tools 0.20.1-foss-2022a

Deprecated: Use of this version of scvi-tools is deprecated. More information on our Applications Support and Retention Policy.

scvi-tools (single-cell variational inference tools) is a package for probabilistic modeling and analysis of single-cell omics data, built on top of PyTorch and AnnData.

Accessing scvi-tools 0.20.1-foss-2022a

To load the module for scvi-tools 0.20.1-foss-2022a please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load scvi-tools/0.20.1-foss-2022a

There is a GPU enabled version of this module: scvi-tools 0.20.1-foss-2022a-CUDA-11.7.0

BEAR Apps Version

2018b

Extensions

• cached-property-1.5.2
• chex 0.1.6
• contextlib2 21.6.0
• docrep 0.3.2
• flax 0.6.4
• ml_collections 0.1.1
• mudata 0.2.1
• multipledispatch 0.6.0
• numpyro 0.11.0
• optax 0.1.4
• orbax 0.1.2
• pyro-api-0.1.2
• pyro-ppl-1.8.4
• scvi_tools 0.20.1
• tensorstore 0.1.32
• toolz 0.12.0

More Information

For more information visit the scvi-tools website.

Dependencies

This version of scvi-tools has a direct dependency on: dm-tree/0.1.8-GCCcore-11.3.0 foss/2022a h5py/3.7.0-foss-2022a IPython/8.5.0-GCCcore-11.3.0 jax/0.4.4-foss-2022a matplotlib/3.5.2-foss-2022a openpyxl/3.0.10-GCCcore-11.3.0 poetry/1.2.2-GCCcore-11.3.0 Python/3.10.4-GCCcore-11.3.0 PyTorch-Lightning/1.9.3-foss-2022a scanpy/1.9.1-foss-2022a scikit-learn/1.1.2-foss-2022a scikit-misc/0.1.4-foss-2022a SciPy-bundle/2022.05-foss-2022a

Required By

This version of scvi-tools is a direct dependent of: cell2location/0.1.3-foss-2022a

Other Versions

These versions of scvi-tools 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 27th February 2023