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Image-processing software for cryo-electron microscopy
Computational Crystallography Toolbox
Updated
Jun 5, 2022
Python
A collaborative list of awesome CryoEM (Cryo Electron Microscopy) resources.
Scipion is an image processing framework to obtain 3D models of macromolecular complexes using Electron Microscopy (3DEM)
Updated
Jun 4, 2020
Python
pytorch implementation of noise2noise for Cryo-EM image denoising
Updated
Jan 3, 2019
Python
Deep learning for cryo-EM maps post-processing
Updated
May 30, 2022
Python
A curated list of awesome computational cryo-EM methods.
Updated
May 27, 2022
Jupyter Notebook
register 3D point clouds using rotation, translation, and scale transformations.
Updated
Mar 21, 2022
Python
Xmipp is a suite of image processing programs, primarily aimed at single-particle 3D electron microscopy.
High Throughput Electron Microscopy Image Processing Software
Rigid body fitting of atomic strucures in cryo-electron microscopy density maps
Updated
Oct 29, 2018
Python
Conventions for 3DEM software packages
Updated
Feb 22, 2022
Python
Utilities to help cryoEM data analysis
Updated
Jun 15, 2021
Shell
[BS]物联网工程，[MS]计算机技术，python，mooc资源，机器学习，深度学习，cryo-em[冷冻电子显微镜]，3D reconstruction[三维重建]，Computational Vison。
Learning to recover orientations from projections in single-particle cryo-EM
Updated
Jan 30, 2022
Jupyter Notebook
A CNN for denoising cryo-EM images
Updated
Dec 9, 2019
Python
Covariance Estimation and Denoising for Cryo-EM Images (Covariance Wiener Filtering)
Updated
Aug 8, 2017
MATLAB
Transphire: Cryo-EM on the fly processing pipeline
Updated
Aug 27, 2021
Python
Manipulate and mine Relion .star files
Updated
Nov 20, 2021
Python
CryoSPARC is the state-of-the-art platform used globally for obtaining 3D structural information from single particle cryo-EM data. The cryoSPARC platform enables automated, high quality and high-throughput structure discovery of proteins, viruses and molecular complexes for research and drug discovery.
Updated
May 18, 2022
Python
Pre-revolution cryo-EM scripts
Updated
Jun 9, 2018
Python
Updated
Feb 22, 2022
Jupyter Notebook
Updated
Jan 25, 2022
Python
Fetch metadata from EPU / SerialEM and launch on-the-fly pre-processing
Updated
May 18, 2022
Python
Software to integrate Relion GUI with Amazon Web Services, accompanied by easy command line tools. Learn more at cryoem-tools.cloud
volumetric image toolkit for simple feature detection (segment tomograms)
Implementation of a Bayesian approach to cryo-EM structure determination
Updated
Nov 3, 2018
MATLAB
3d protein model reconstruction pipeline from cryo-em particle images, developed at Yale IPAG
Updated
Dec 28, 2016
MATLAB
TomoBEAR is an automated, configurable and customizable full processing pipeline for tomographic cryo electron microscopy data and subtomogram averaging
Updated
May 31, 2022
MATLAB
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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 not writeable, and PyTorch does not support non-writeable tensors. This means you can write to the underlying (supposedly non-writeable) NumPy array using the tensor. You may want to copy the array to protect its data