pySCENIC 0.12.1-foss-2022a

pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.

Accessing pySCENIC 0.12.1-foss-2022a

To load the module for pySCENIC 0.12.1-foss-2022a please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load bear-apps/2022a
module load pySCENIC/0.12.1-foss-2022a

BEAR Apps Version

2022a

Architectures

EL8-cascadelake — EL8-icelake — EL8-sapphirerapids

The listed architectures consist of two part: OS-CPU. The OS used is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.

Extensions

• arboreto 0.1.6
• boltons 23.0.0
• ctxcore 0.2.0
• cytoolz 0.12.1
• frozendict 2.3.8
• interlap 0.2.7
• multiprocessing_on_dill 3.5.0a4
• pyscenic 0.12.1

More Information

For more information visit the pySCENIC website.

Dependencies

This version of pySCENIC has a direct dependency on: aiohttp/3.8.3-GCCcore-11.3.0 Arrow/8.0.0-foss-2022a dask/2022.10.0-foss-2022a dill/0.3.6-GCCcore-11.3.0 foss/2022a loompy/3.0.7-foss-2022a networkx/2.8.4-foss-2022a Python/3.10.4-GCCcore-11.3.0 PyYAML/6.0-GCCcore-11.3.0 scikit-learn/1.1.2-foss-2022a tqdm/4.64.0-GCCcore-11.3.0 umap-learn/0.5.3-foss-2022a

Last modified on 9th April 2024