Summer School on Electron Microscopy:
Fundamental Limits and New Science
held at Cornell University, July 13-15, 2006.


Table of Contents

1. Background Reading (review material to read before the workshop)
2. Linear Imaging Theory
3. Practical STEM
4. Multislice Simulations
5. Electron Energy Loss Spectroscopy
6. Bloch Wave Simulations
7. Room Environment

• Fourier Transforms
• Fourier Transforms in 2D
• Linear Systems

Linear Imaging Theory

• Lecture Notes on linear imaging theory
• Choosing the correct aperture size (see appendix A for derivations)
•  Lab Exercises
•    Pointspread and Contrast Transfer functions: 
• Save drawmtf.class and drawmtf.html in the same directory then open drawmtf.html with your favorite browser.  Earl Kirkland's Java applet includes third and fifth order spherical aberrations.
•   Download and extract these Matlab files:  
• stemcon.zip  then try   
• Image simulation by convolution
• Don't like Matlab?  Here is Earl Kirkland's command-line incoherent imaging program:  incostem.zip (it also allows you to specify the detector angles and corrector for the cross-sections accordingly)
  

Practical STEM

• Lecture notes on the practical details of STEM imaging, including Ronchigrams and the choice of detector angles

Multislice Simulations

• Tutorial on Multislice
• Simulations that include beam spreading and dynamical scattering.
• plotstemline.m  is a Matlab script to read stemslice.exe output line profiles and plot them.

Electron Energy Loss Spectroscopy

• Lecture Notes on Core Loss EELS, both analysis and simulation.
• Lecture Notes on Low Loss EELS and spatial resolution in EELS
• Fine-Structure fingerprints of most materials  - a review article by Chen.  It has useful references to previous work (mostly x-ray) and theoretical interpretation.  Read this before reinventing the wheel.
• EELS with plane wave illumination (i.e. no spatial localization) - a review article by Brydson.  A good review of EELS fine structure in crystals and different calculation methods.
• Delocalization in Inelastic Scattering - the dipole approximation
• Links to Codes that can Calculate EELS fine structure
• FDMNES - a free, full-potential, but not self-consistent cluster code.  It can accept potentials calculated  by Wien2k however.
• FEFF - a muffin-tin potential, but self-consistent cluster code.  
• Wien2k - A full-potential, APW bandstructure code.  It has useful routines for calculating EELS matrix elements.
• ABINIT - an open-source, free, plane-wave psuedopotential code.

Bloch Wave Simulations

• Lecture notes on Inelastic Scattering with an emphasis on the Bloch Wave Approach.
• A simple Bloch-wave simulation code for elastic and inelastic scattering by Les Allen (contact Les by email for an updated version).

Room Environment

• Troubleshooting noisy images
• Fixing noisy rooms