Code

The GitHub respositories listed below were developed by our team for teaching purposes and potential method development. We welcome your feedback; please send it to .

• CTF notebook
  This repository contains a Jupyter Notebook implementation of the Contrast Transfer Function (CTF) in electron microscopy. It briefly explains the equations invovled and features an interactive graphical user interface (GUI) at the end that allows you to explore how various factors affect the CTF in both 1D and 2D. Through this interactive tool, you can investigate the influence of parameters such as defocus, aberrations, and envelope functions on the resulting CTF.

• CTF SimGUI
  This repository implements a simulation of Contrast Transfer Function (CTF) in electron microscopy, similar to the CTF notebook. It features a PyQt-based GUI designed for speed and responsiveness, offering a more efficient alternative to the Jupyter notebook interface.
  
  

X-ray Crystallography

• Crystallography on OS X by William Scott
  If you ever want to solve a structure using your own mac. Also a good overview of commonly used crystallography programs.

• Protein Crystallography Course by Randy Read et al.
  Probably the best online crystallography course I’ve seen.

• Basic Maths for Protein Crystallographers by Eleanor Dodson
  Simple and elegant! Came across it when I was a graduate student, still love it.

• PyMOL Wiki by SBGrid
  Want to make a cool structure movie using PyMOL? Check the tutorials out!
  
  

Electron Microscopy

• Getting Started in Cryo-EM by Grant Jensen
  Execellent courses to get started in cryo-EM!

• LMB EM-course and RELION by Sjors Scheres
  Check out RELION Wiki and also the courses (ftp link hidden at very end).

• Workshops and Courses by National Resource for Automated Molecular Microscopy (NRAMM)
  Execellent resources! All lectures are recorded.

• 3DEM Methods
  A very comprehensive list of literatures regarding EM methods, including many classical papers.