Supported Applications
DeepEMhancer
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Description
(Deep cryo-EM Map Enhancer) a python package designed to perform non-linear post-processing of cryo-EM maps for local sharpening, automatic masking and denoising. Systems using cuda 11+ should use the 20210511 version of deepEMhancer, and the modified models distributed in /programs/share/deepemhancer/20210511/deepEMhancerModels/production_checkpoints/
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Usage Notes
Known Issues:
Users have reported issues when loading the models obtained using the --download flag with DeepEMhancer. If you have errors running the application, try adding this flag--deepLearningModelPath /programs/share/deepemhancer/20210511/deepEMhancerModels/production_checkpoints
to your deepemhancer command. This will use the local models which are known to work with the versions of DeepEMhancer in SBGrid.
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Installation
Use the following command to install this title with the CLI client:$ sbgrid-cli install deepemhancer
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Primary Citation*
R. Sanchez-Garcia, J. Gomez-Blanco, A. Cuervo, J. M. Carazo, C. O. S. Sorzano, and J. Vargas. 2021. DeepEMhancer: a deep learning solution for cryo-EM volume post-processing. Communications Biology. 4(1): 874.
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*Full citation information available through
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Webinars
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Keywords
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Default Versions
Linux 64:  20220530_cu10
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Other Versions
Linux 64:
20220530_cu11, 20210511, 20200909
Developers
Javier Vargas, Ruben Sanchez-Garcia