imod

📚 Documentation of the iMOD suite.

A tool reading IMOD points, obtaining particles' info and generating .star file for RELION

Creates binary mask from imod boundary model.

helper scripts for Electron microscopy data processing

Subtomogram Averaging using Dynamo, imod, Relion and MatLab

FerriTag modelling and spatial analysis in Igor Pro

IMOD to TomoJ landmarks convertor

SynapticVes-Py. Python code to support 3D quantitative analysis of presynaptic active zones in hippocampal mossy fiber boutons using electron tomograms and IMOD model output.

Decode, encode, and inspect IMOD model files — from Rust and Python. Read and write .mod files used by the IMOD electron microscopy toolkit, in both binary and ASCII formats.

Blends SerialEM montages with IMOD and writes calibrated pyramidal OME-TIFF, plus BigDataViewer-compatible HDF5 and reduced-resolution derivatives for very large montages. GUI and standalone Windows executable.

Cryo-electron tomography (cryo-ET) pipeline for viral spike structure analysis. Includes tilt-series alignment (IMOD), tomogram reconstruction, particle picking, subtomogram averaging with C3 symmetry, and iterative refinement.