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.
https://scanpy.readthedocs.io/en/stable/
Available modules¶
The overview below shows which scanpy installations are available per target architecture in EESSI, ordered based on software version (new to old).
To start using scanpy, load one of these modules using a module load command like:
(This data was automatically generated on Fri, 06 Feb 2026 at 13:12:13 UTC)
| aarch64/generic | aarch64/a64fx | aarch64/neoverse_n1 | aarch64/neoverse_v1 | aarch64/nvidia/grace | x86_64/generic | x86_64/amd/zen2 | x86_64/amd/zen3 | x86_64/amd/zen4 | x86_64/intel/cascadelake | x86_64/intel/haswell | x86_64/intel/icelake | x86_64/intel/sapphirerapids | x86_64/intel/skylake_avx512 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| scanpy/1.9.8-foss-2023a | x | x | x | x | x | x | x | x | x | x | x | x | x | x |
scanpy/1.9.8-foss-2023a¶
This is a list of extensions included in the module:
joblib-1.3.2, legacy_api_wrap-1.4, natsort-8.4.0, packaging-23.2, scanpy-1.9.8, session-info-1.0.0, stdlib_list-0.10.0