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Image-processing software for cryo-electron microscopy

Cctbx_project ⭐ 197

Computational Crystallography Toolbox

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.

Computational Cryoem ⭐ 73

A curated list of awesome computational cryo-EM methods.

Awesome Cryoem ⭐ 70

A collaborative list of awesome CryoEM (Cryo Electron Microscopy) resources.

Self-supervised learning for isotropic cryoET reconstruction

Xmipp is a suite of image processing programs, primarily aimed at single-particle 3D electron microscopy.

Deepemhancer ⭐ 35

Deep learning for cryo-EM maps post-processing

Cryostar ⭐ 28

Leveraging Structural Prior and Constraints for Cryo-EM Heterogeneous Reconstruction

High Throughput Electron Microscopy Image Processing Software

Cryosparc Tools ⭐ 26

Python library that enables scripting access to CryoSPARC, a cryo-EM software package.

deep structural disentanglement

Superpose3d ⭐ 26

register 3D point clouds using rotation, translation, and scale transformations.

Privateer ⭐ 24

The Swiss Army knife for carbohydrate structure validation, refinement and analysis

Tomotwin Cryoet ⭐ 24

cryo-ET particle picking using triplet networks and metric learning

Cryoread ⭐ 24

CryoREAD: a computational tool using deep learning to automatically build full DNA/RNA atomic structure from cryo-EM map.

Tomobear ⭐ 21

TomoBEAR is a configurable and customizable modular pipeline for streamlined processing of cryo-electron tomographic data for subtomogram averaging.

Powerfit ⭐ 19

Rigid body fitting of atomic strucures in cryo-electron microscopy density maps

Noise2noise Cryo Em Image Denoising ⭐ 18

pytorch implementation of noise2noise for Cryo-EM image denoising

ArtiaX is an open-source extension of the molecular visualisation program ChimeraX.

Emap2secplus ⭐ 15

Emap2sec+: Detecting Protein and DNA/RNA Structures in Cryo-EM Maps of Intermediate Resolution Using Deep Learning

3dem Conventions ⭐ 14

Conventions for 3DEM software packages

Starparser ⭐ 12

Manipulate and mine Relion .star files

Cryosparc2_public ⭐ 12

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.

DAQ: Residue-Wise Local Quality Estimation for Protein Models from Cryo-EM Maps

Cryoem_synthetic_generation ⭐ 11

Simulation of cryo-EM ensemble data from atomic models of molecules exhibiting continuous motions

Transphire ⭐ 9

Transphire: Cryo-EM on the fly processing pipeline

Fetch metadata from EPU / SerialEM and launch on-the-fly pre-processing

Cryo Ralib ⭐ 8

Cryoem Scripts ⭐ 8

Utilities to help cryoEM data analysis

Appion Protomo ⭐ 8

A Docker-based distribution of Appion-Protomo.

Manifoldem_python ⭐ 8

ManifoldEM Python suite

Protein Reconstruction ⭐ 7

Learning to recover orientations from projections in single-particle cryo-EM

volumetric image toolkit for simple feature detection (segment tomograms)

Cs Learning Resources ⭐ 6

[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-e reconstruction[三维重建]，Computational Vison。

Cwf_denoise ⭐ 6

Covariance Estimation and Denoising for Cryo-EM Images (Covariance Wiener Filtering)

Epfl Cryoem ⭐ 6

Implementation of a Bayesian approach to cryo-EM structure determination

Toolbox for post-correlation cryo-CLEM workflow developed at Chlanda Lab, Heidelberg University.

Diffmodeler ⭐ 5

DiffModeler: a diffusion model based protein complex structure modeling tool.

Aws Deployment Guide ⭐ 5

Seamlessly deploy cryoSPARC in the cloud using AWS CloudFormation and AWS ParallelCluster.

Deepmainmast ⭐ 5

Ctfsimulation ⭐ 5

A CTF Simulation Web App

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Python Cryo Em (36)

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