Difference between revisions of "Pasteur workshop 2017"
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== Program== | == Program== | ||
| − | === Introduction to tomography and subtomogram averaging === | + | ===Introduction to tomography and subtomogram averaging=== |
45 minutes of presentation to introduce tomography, subtomogram averaging and ''Dynamo''. | 45 minutes of presentation to introduce tomography, subtomogram averaging and ''Dynamo''. | ||
| Line 39: | Line 39: | ||
on screen presentation/hands-on practical. We will follow together the [[starters guide | basic hands-on tutorial]] of ''Dynamo''. | on screen presentation/hands-on practical. We will follow together the [[starters guide | basic hands-on tutorial]] of ''Dynamo''. | ||
Advanced getting started. | Advanced getting started. | ||
| + | |||
=== Advanced getting started=== | === Advanced getting started=== | ||
After the coffee break at 16:00 participants will follow the [[advanced starters guide| advanced introduction]] on a reduced data set from a real tomogram. | After the coffee break at 16:00 participants will follow the [[advanced starters guide| advanced introduction]] on a reduced data set from a real tomogram. | ||
Revision as of 19:00, 18 July 2017
A guide to use Dynamo during the practical session of the Pasteur course INTEGRATIVE STRUCTURAL BIOLOGY - Mechanisms of Living Organisms, in the afternoon session of the 19th of July of 2017.
Contents
Computer access
Access the course account with your password.
Opening a Linux terminal
We need to create a command terminal. Right click on the screen and select Open Terminal in the menu . A Linux command window will popup. Please create a folder for this course.
mkdir tomo cd tomo
Starting Dynamo
In the terminal open Matlab through:
matlab &
(it will take some secons). Then, in the Matlab window write: run /ISB2017/dynamo/dynamo_activate.m
This will activate Dynamo in the current Matlab session.
Data
The tomogram for the second tutorial is located in the location /ISB2017/Course_material/July19/crop.rec
Make a local copy by typing in the Matlab window:
!cp /ISB2017/Course_material/July19/crop.rec .
(the "!" signs just passes the cp order to Linux)
Program
Introduction to tomography and subtomogram averaging
45 minutes of presentation to introduce tomography, subtomogram averaging and Dynamo.
Tutorial 1: Getting started
on screen presentation/hands-on practical. We will follow together the basic hands-on tutorial of Dynamo.
Advanced getting started.
Advanced getting started
After the coffee break at 16:00 participants will follow the advanced introduction on a reduced data set from a real tomogram.
Instructors
- Daniel Castaño-Díez, BioEM Lab, University of Basel
- Paula Pérez-Navarro, C-CINA, University of Basel
- Cynthia Taveneau, Institut Curie, Paris
