• Ws2013
• EMAN2

International Workshop of Advanced Image Processing of Cryo-Electron Microscopy

Institute of Biophysics, Chinese Academy of Sciences, Beijing

Update:

2013/07/01 11:55 am - Testing of the new alpha release is still in progress. We may delay release until tomorrow morning so we can finish some testing overnight.

2013/07/02 7:00 am - Testing is going well, we expect EMAN2.1alpha1 to be ready later today. The demonstration dataset and tutorial will be posted later this week.

These tutorial materials are for the workshop hosted by the Chinese Academy of Sciences in Beijing in July 2013. Each day of the workshop is devoted to a different software package. The material on this page is the training material for EMAN2.

We will be using EMAN2.1alpha, the first testing release of EMAN2.1, for this tutorial session. While this version is not completely stable, and not every feature will work, there are several important reasons to use it instead of EMAN 2.07:

• The BDB mechanism used by older EMAN2 versions has been retired. This means that projects are structured somewhat differently than earlier versions. If we used EMAN2.07 then in the next few months you would have to upgrade everything you've done to work with the new version.
• The HDF (image) and JSON (text metadata) files we use instead of BDB are MUCH easier to manage and work with, which will mean we can spend more time on advanced image processing and less time dealing with the basics.
• The new e2refine-easy command means there are far fewer parameters you have to learn about to do reconstructions in EMAN2, and again, will allow us to focus on more advanced topics. It also integrates gold-standard resolution estimates, so is at least 2x faster than EMAN 2.07.

Since we are trying to get as much of EMAN2.1 working as well as possible before the workshop, we are delaying the release as late as possible. Our current plan is to release it on July 1. We will update this page as the date approaches.

Workshop participants who will be using their own laptop computers will need to do the following before the workshop:

• install EMAN 2.1alpha (no earlier versions will work properly with the new tutorial)
  • After installing, test your installation by running:
    • e2version.py
    • e2speedtest.py
    • e2display.py (with no arguments this will open a browser and you can display any cryo-EM image)
• download the sample data
• download the tutorial

None of these 3 items is yet available. More updates will be posted July 1 (please note that it is 13 hours later in Beijing than in Houston !).