cryoem

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.

Software for macromolecular model-building

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

A curated list of awesome computational cryo-EM methods.

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

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

Overcoming the preferred orientation problem in cryoEM with self-supervised deep-learning

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

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

example set up for Relion on AWS ParallelCluster for CryoEM

A Docker-based distribution of Appion-Protomo.

.MRC and .EM thumbnailer for GNOME

volumetric image toolkit for simple feature detection in 3D images (segment tomograms)

KLT picker: Particle picking using data-driven optimal templates (Python version)

Microtubule Image Processing in CryoSPARC Pipeline

A Framework for Orientation Recovery with Uncertainty Measurement in Cryo-EM Image Analysis

a GUI for the analysis of cryo-EM screening data

helper scripts for Electron microscopy data processing

(CVPR 2026) Compressive Sensing Enables High-throughput Microscopy with Sparse and Generative Priors (Diffusion Model) on the Protein Cryo-EM Image Manifold