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.

homepage: https://scanpy.readthedocs.io/en/stable/

Available installations¶

scanpy version	Supported CPU targets	Supported GPU targets	EESSI version	Module
1.9.8	`generic`: `aarch64`, `x86_64` Arm: `a64fx`, `neoverse_n1`, `neoverse_v1`, `nvidia/grace` AMD: `zen2`, `zen3`, `zen4` Intel: `haswell`, `skylake_avx512`, `sapphirerapids`, `icelake`, `cascadelake`	(none)	2023.06	`scanpy/1.9.8-foss-2023a`

Extensions¶

Overview of extensions included in scanpy installations

joblib¶

`joblib` version	scanpy modules that include it
1.3.2	`scanpy/1.9.8-foss-2023a`

legacy_api_wrap¶

`legacy_api_wrap` version	scanpy modules that include it
1.4	`scanpy/1.9.8-foss-2023a`

natsort¶

`natsort` version	scanpy modules that include it
8.4.0	`scanpy/1.9.8-foss-2023a`

packaging¶

`packaging` version	scanpy modules that include it
23.2	`scanpy/1.9.8-foss-2023a`

scanpy¶

`scanpy` version	scanpy modules that include it
1.9.8	`scanpy/1.9.8-foss-2023a`

session-info¶

`session-info` version	scanpy modules that include it
1.0.0	`scanpy/1.9.8-foss-2023a`

stdlib_list¶

`stdlib_list` version	scanpy modules that include it
0.10.0	`scanpy/1.9.8-foss-2023a`