README.md

✨ Code for:Near-Isotropic Sub-Ångstrom 3D Resolution Phase Contrast Imaging Achieved by End-to-End Ptychographic Electron Tomography ✨

📄 Read our paper here:
Near-Isotropic Sub-Ångstrom 3D Resolution Phase Contrast Imaging Achieved by End-to-End Ptychographic Electron Tomography
Shengbo You, Andrey Romanov, Philipp Pelz

Requirements

• taichi
• pytorch
• abtem
• ase
• h5py
• matplotlib
• numpy
• scipy
• pyprismatic
• kornia
• zarr
• ccpi (ccpi uses Apache 2.0 license)

Install

pip install . -e

Data links

• Raw data: link
• Alignment results: link
• MSP Reconstructed results: link

Overview

Simulation

build_PtAl2O3_xyzFile.py: build the xyz file of the PtAl2O3 nanoparticle

build_PtAl2O3_volume.py: build the volume of the PtAl2O3 nanoparticle

PtAl2O3_DataCollection.py: simulate 4DSTEM data collection of the PtAl2O3 nanoparticle

general_interface_ptychotomo_PtAl2O3.py: reconstruct the PtAl2O3 nanoparticle using the joint ptychotomo model

Experiment

Alignment_Te.py: align the tilt series of the Te nanoparticle

general_interface_ptychotomo_Te.py: reconstruct the Te nanoparticle using the joint ptychotomo model