DeepACSON: Automated Segmentation of White Matter in 3D Electron Microscopy

In this work an automatic code for collection of the CuS nanoparticles thickness and width is suggested. The code is written in Matlab and uses its advanced image processing tools. Bright field TEM images were produced using Ilse Katz Institute for Nanoscale Science & Technology TEM JEM-1230 (T-12). The images were converted from DigitalMicrogra…

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

Cython functions for zwatershed

This repository is official implementation of "EM-stellar: benchmarking deep learning for electron microscopy image segmentation" on Google Colab.

Modeling of the TFIIH complex using chemical cross-links and electron microscopy (EM) density maps

Python code to help extract metadata parameters from SEM images

Your own customizable "back of the envelope" calculation!

Using deep learning methods to recognize and measure silica spheres in SEM pictures.

Modeling of the Nup84 subcomplex of the Nuclear Pore Complex

Modeling of the yeast Mediator complex

MICrONS TA3 connectivity database

An API to interactively run the AlignEM-SWiFT NG v0.3.5 software on the Lonestar6 supercomputer.

The code for reconstruction algorithm and post-processing of electron tomographic series of colloidal particles acquired in liquid

Library of phase imaging functions, classes, and methods.

A collection of C++ source code modules for modelling of forward and inverse problems in TEM of sparse atomic structures. See examples of usage at http://arxiv.org/abs/1911.11599 and http://arxiv.org/abs/1911.11598 .

Calculate the total generalized oscillator strength for atomic orbitals

Modeling of the Nup82 subcomplex of the Nuclear Pore Complex

Visualization of gigavoxel volume with tracing functionality

Panoptic segmentation algorithms for 2D and 3D electron microscopy images