topaz
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tbepler
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...
Hi, I have installed the topaz the newest version 0.2.5. Because the GPU version is sm_83, I installed the pytorch==1.7.0=py3.7_cuda11.0.221_cudnn8.0.3_0. And then I installed topaz with conda install topaz. However,...
Dear Topaz Experts, I have tried downloading Topaz and running the tutorial. However, when I reach to first training step I see the warning: UserWarning: The given NumPy array is...
Hi, I'm trying to follow https://doi.org/10.1101/2022.02.07.479378 paper to solve EMPIAR-10940 datasets. However, when I try to use anaconda version topaz to repeat the result, I found I cannot use -f...
Hi, I am using the command line version of Topaz and can generate .star file from the .txt file using the topaz convert command. The output does not seem to...
I usually organize my cryo-EM data based on relion recommendations. See section 2.1 of [Link](https://hpc.nih.gov/apps/RELION/relion31_tutorial.pdf). For example, I put my tif files under Movies/10Feb2021 and import the movies into relion...
Hi, I suffer from a lack of permission on our GPU cluster so opted to go for the singularity Topaz container as a way to access the Relion integration. Thank...
Hello, Every time I use Topaz, it's a struggle to find documentation. Not because of a lack of it, but because it is scattered across different documents, all these documents...
Hello, It would be helpful if the picking GUI could display the current number of picked particles somewhere, to help the user know when they have enough picks to start...