BEAR Applications

Topaz 0.2.4-fosscuda-2020b-PyTorch-1.7.1

Unsupported: Use of this version of Topaz is not supported. More information on our Applications Support and Retention Policy.

Pipeline for particle picking in cryo-electron microscopy images using convolutional neural networks trained from positive and unlabeled examples. Also featuring micrograph and tomogram denoising with DNNs.

Accessing Topaz 0.2.4-fosscuda-2020b-PyTorch-1.7.1

To load the module for Topaz 0.2.4-fosscuda-2020b-PyTorch-1.7.1 please use this command on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs):

module load bear-apps-unsupported/handbuilt/2019
module load Topaz/0.2.4-fosscuda-2020b-PyTorch-1.7.1

There is a CPU version of this module: Topaz 0.2.4-foss-2020b-PyTorch-1.7.1

BEAR Apps Version

2019h

More Information

For more information visit the Topaz website.

Dependencies

This version of Topaz has a direct dependency on: fosscuda/2020b Python/3.8.6-GCCcore-10.2.0 PyTorch/1.7.1-fosscuda-2020b scikit-learn/0.23.2-fosscuda-2020b torchvision/0.8.2-fosscuda-2020b-PyTorch-1.7.1

Other Versions

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

Last modified on 13th July 2021