Difference between revisions of "Diamond Workshop 2017"

From Dynamo
Jump to navigation Jump to search
Line 76: Line 76:
  
 
===Additional tools===
 
===Additional tools===
Friday morning session.
+
Wednesday afternoon session.
* Some tools for tilt series alignment, reconstruction, CTF correction.
 
 
* Subboxing
 
* Subboxing
 
*: motivation slide: [http://{{SERVERNAME}}/w/doc/misc/motivationSubboxing.pptx  extraction of vertices from icosahedral viruses]
 
*: motivation slide: [http://{{SERVERNAME}}/w/doc/misc/motivationSubboxing.pptx  extraction of vertices from icosahedral viruses]

Revision as of 17:45, 23 November 2017

This page is provided as a generic orientation of the contents of the practical hands-on sessions in Diamond (November 2017). The final material will be updated before the beginning of the course.

Theory will be presented on synthetic data generated on the fly by Dynamo.

Program

Exact schedule will be updated here.

General Introduction

Clicking particles in the Starters guide

Guided presentation:

  • tutorial on basic elements: help, data and metadata formats.
  • tutorial on the basic concept in Dynamo alignment: the project.

Working on your own:

  • Basic walkthrough: creating a catalogue, picking particles, launching a project.
  • Further work:
    • tutorial on the use command line operations for general purposes.
    • tutorial on the use of the command line to manage projects.

Geometric modeling

Geometric modeling for surfaces and filaments

Short guided presentation:

Working on your own:

Template matching

Working on your own:

  • We will follow this walkthrough for automated identification of proteosomes on a real tomogram through template matching. (~1 hour)

Classification

Short guided presentation:

Creation of 3D scenes

Working on your own:

Further support material.

  • Walkthrough on depiction and manipulation of triangulations (synthetic data).

Additional tools

Wednesday afternoon session.

Data sets

The data sets will be updated here.

Exercises

Exercises are scheduled for the last day. Nevertheless, feel free to start them any time during the workshop.