View source for Materials Basel 2016

Theory will be presented on synthetic data generated on the fly by ''Dynamo''. Then, the shown theory can be applied on real data sets brought by the participants themselves, or the data sets prepared in the instructor file share under: 
<tt>/Users/gast/mountedData/workshop2016</tt>


==Program==

===General Introduction===

Wednesday afternoon.

* [http://{{SERVERNAME}}/w/doc/misc/conceptsSheet.pdf Basic ''Dynamo'' jargon]

* [http://{{SERVERNAME}}/w/doc/misc/introductionTablesAndData.pdf tutorial on] basic elements: help, data and metadata formats.
* [http://{{SERVERNAME}}/w/doc/misc/introductionAlignmentProjects.pdf tutorial on] the basic concept in ''Dynamo'' alignment: the ''project''.

after the coffee break: 

* Basic [[Starters guide | walkthrough]]: creating a catalogue, picking particles, launching a project.
* Further work:
** {{pdftutorial|commandline|tutorial}} on the use command line operations for general purposes.
** {{pdftutorial|command_line_projects|tutorial}} on the use of the command line to manage projects.

===Data management and modeling===
Thursday morning.

*  [http://{{SERVERNAME}}/w/doc/misc/modelMembrane tutorial on] membrane modeling with <tt> dmslice </tt>
* Filament models with <tt>dtmslice</tt>
** [http://{{SERVERNAME}}/w/doc/misc/modelFilament tutorial ]
** [[Filament model | walkthrough]]
* Reusing model workflows ([[Walkthrough model worfklow reuse | walkthrough]])
* Further work: catalogue

===Classification===
Thursday afternoon session.
* PCA [http://{{SERVERNAME}}/w/doc/misc/workshopIntroPCA.pptx Basic concepts.] 
* Multirefererence Analysis  <br /> [http://{{SERVERNAME}}/w/doc/misc/workshopIntroPCA.pptx  Basic concepts.]  <br />[[Walkthrough basic multireference|walkthrough]]
* Further work
** Commandline operations with PCA

.

===Additional tools===
Friday morning session.
* Subboxing {{pdftutorial|subboxing_symmetry|tutorial}}
* Manual alignment.
* [[Workshop exercises| Exercises]]

== Data sets ==
In the directory <tt>/Users/gast/mountedData/workshop2016</tt> there are folders with real data sets representing typical situations. There are both tomograms and already extracted [[data folder]]s. 
*D1 to D4 are tomograms described [http://{{SERVERNAME}}/w/doc/workshops/2016/Datasets.pdf here].
*D5-D6 are folders containing different formatted data folders.

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