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A python package for working with crystal orientations in transmission electron microscopy

Project description



pycotem is a python package for working with crystal orientations in transmission electron microscopy. It provides 6 GUI tools to:

  • determine orientation from diffraction patterns: diffraction

  • determine orientation from Kikuchi patterns: kikuchi

  • work with stereographic projections: stereoproj

  • determine interface normal and direction from images: interface

  • determine orientation relationship and misorientation between two crystals: misorientation

  • display crystal projection on a plane and draw dichromatic patterns: crystal

Getting Started


pycotem relies on python3 with numpy, pillow, matplotlib and pyqt5 (for GUI) packages.

Installing and running

pycotem can be installed with pip: pip3 install pycotem Run python3 -m pycotem.xxxx for the different tools: stereoproj, diffraction, kikuchi,misorientation,interface and crystal.


Image files and setting parameters are provided in the test directory in the github repository for testing diffraction, interface and kikuchi.


Available here


Contributions, bug issues, requests and comments can be adressed directly or through pull-request on github.


F. Mompiou, with idea from RX Xie (Tsinghua Univ), J. Du (Tsinghua Univ.) and the contribution of G. Perret (Univ. Toulouse).


This project is licensed under the GPL-3.0 License.

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