Cellpose 2.2-foss-2022a

a generalist algorithm for cellular segmentation

Accessing Cellpose 2.2-foss-2022a

To load the module for Cellpose 2.2-foss-2022a please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load bear-apps/2022a module load Cellpose/2.2-foss-2022a

There is a GPU enabled version of this module: Cellpose 2.2-foss-2022a-CUDA-11.7.0

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

Cellpose 2.2
fastremap 1.13.4
imagecodecs 2023.1.23
natsort 8.2.0
pyqtgraph 0.13.1
superqt 0.4.0
tifffile 2023.2.3

More Information

For more information visit the Cellpose website.

Dependencies

This version of Cellpose has a direct dependency on: foss/2022a numba/0.56.4-foss-2022a OpenCV/4.6.0-foss-2022a-contrib PyQt5/5.15.5-GCCcore-11.3.0 Python/3.10.4-GCCcore-11.3.0 PyTorch/1.12.1-foss-2022a QtPy/2.3.0-GCCcore-11.3.0 tqdm/4.64.0-GCCcore-11.3.0

Required By

This version of Cellpose is a direct dependent of: steinbock/0.16.1-foss-2022a

Other Versions

These versions of Cellpose are available on the BEAR systems (BlueBEAR and BEAR Cloud VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Version	BEAR Apps Version
2.2-foss-2022a-CUDA-11.7.0	2022a
0.6.5-foss-2021a	2021a
0.6.5-foss-2021a-CUDA-11.3.1	2021a
0.6.5-foss-2020b	2020b

Last modified on 14th February 2023