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55 public repositories
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Image-processing software for cryo-electron microscopy
Computational Crystallography Toolbox
Updated
Nov 5, 2021
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
register 3-D point clouds using rotation, translation, and scale transformations.
Updated
Jul 17, 2021
Python
High Throughput Electron Microscopy Image Processing Software
Deep learning for cryo-EM maps post-processing
Updated
Oct 25, 2021
Python
Xmipp is a suite of image processing programs, primarily aimed at single-particle 3D electron microscopy.
Rigid body fitting of atomic strucures in cryo-electron microscopy density maps
Updated
Oct 29, 2018
Python
A curated list of awesome computational cryo-EM methods.
Updated
Sep 1, 2021
Jupyter Notebook
Conventions for 3DEM software packages
Updated
Jun 24, 2021
Python
Utilities to help cryoEM data analysis
Updated
Jun 15, 2021
Shell
Transphire: Cryo-EM on the fly processing pipeline
Updated
Aug 27, 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
Aug 18, 2021
Python
Covariance Estimation and Denoising for Cryo-EM Images (Covariance Wiener Filtering)
Updated
Aug 8, 2017
MATLAB
Pre-revolution cryo-EM scripts
Updated
Jun 9, 2018
Python
[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。
A CNN for denoising cryo-EM images
Updated
Dec 9, 2019
Python
Updated
Oct 24, 2021
Python
Software to integrate Relion GUI with Amazon Web Services, accompanied by easy command line tools. Learn more at cryoem-tools.cloud
Learning to recover orientations from projections in single-particle cryo-EM
Updated
Jun 2, 2021
Jupyter Notebook
PyHoleFinder is a python program to find holes in holey carbon films on a cryo-electron microscope (cryo-EM) grid. This program can work with SerialEM.
Updated
Nov 13, 2020
Python
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
volumetric image toolkit for simple feature detection (segment Cryo-EM tomograms)
Seamlessly deploy cryoSPARC in the cloud using AWS CloudFormation and AWS ParallelCluster.
Updated
May 10, 2021
Shell
Simulation of cryo-EM ensemble data from atomic models of molecules exhibiting continuous motions
Updated
Mar 27, 2021
Python
Updated
Mar 29, 2021
Jupyter Notebook
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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