Difference between revisions of "Main Page"

From Dynamo
Jump to: navigation, search
 
(37 intermediate revisions by 2 users not shown)
Line 1: Line 1:
<strong>Page under construction!!!</strong>
+
{{DISPLAYTITLE:''Dynamo''}}
  
  
Hello.
+
''Dynamo'' is a software environment for subtomogram averaging of cryo-EM data.
  
This site is under construction... the web should not even be visible.
+
This wiki [[Getting started|guides new ''Dynamo'' users]] all the way from tomograms to averages and classes. In a full workflow, you would  organize tomograms in [[Catalogue | catalogues]], use them to  [[Particle picking|pick particles]] and create [[Subtomogram alignment|alignment]] and  [[Classification |classification projects]] to be run on different [[computing environments]].
  
Please use our current website [http://www.dynamo-em.org] instead.
+
= Participate =
  
 +
There is a [[https://groups.google.com/forum/#!forum/dynamo-for-cryo-electron-tomography/join forum in Google Groups]] where you can present your questions to developers and other users.
  
This wiki will guide ''Dynamo'' users all the way from tomograms to averages and classes. In a full workflow, you would  organize tomograms in [[Catalogue | catalogues]], use them to  [[Particle Picking|pick particles]], then create [[Subtomogram alignment|alignment projects]], or even  [[Classification | classification projects]].
+
= Cite =
 +
Please cite these papers if ''Dynamo'' is useful in your research:
  
You don't need to perform this full workflow with ''Dynamo''. ''Dynamo'' is very modular, and with a basic understanding of the [[formats]] of each of those stages, you can jump to the module that carries the analysis part of your interest.
+
* [http://www.sciencedirect.com/science/article/pii/S1047847711003650|''Dynamo: A flexible, user-friendly development tool for subtomogram averaging of cryo-EM data in high-performance computing environments.''] Castaño-Díez D, Kudryashev M, Arheit M, Stahlberg H., J Struct Biol. 2012.
  
{{main|table|Esto linkea a table}}
+
* [http://www.sciencedirect.com/science/article/pii/S1047847716301113| ''Dynamo Catalogue: Geometrical tools and data management for particle picking in subtomogram averaging of cryo-electron tomograms''] Castaño-Díez D, Kudryashev M,  Stahlberg H., in J Struct Biol. 2017 Feb; 197(2):135-144
  
[http://{{SERVERNAME}}/w/doc/functions/dynamo_catalogue_manager.html | dcm]
+
* [https://doi.org/10.1107/S2059798317003369''The Dynamo package for tomography and subtomogram averaging: components for MATLAB, GPU computing and EC2 Amazon Web Services''] Castaño-Díez D. in Acta Crystallographica Section D: Structural Biology 73 (6).
  
{{docfunction | dynamo_catalogue_manager | Dynamo Mola }}
+
* [https://doi.org/10.3389/fmolb.2018.00082''Protocols for Subtomogram Averaging of Membrane Proteins in the Dynamo Software Package''] Navarro PP, Stahlberg H and Castaño-Díez D (2018). Front. Mol. Biosci. 5:82.

Latest revision as of 15:59, 25 September 2019


Dynamo is a software environment for subtomogram averaging of cryo-EM data.

This wiki guides new Dynamo users all the way from tomograms to averages and classes. In a full workflow, you would organize tomograms in catalogues, use them to pick particles and create alignment and classification projects to be run on different computing environments.

Participate

There is a [forum in Google Groups] where you can present your questions to developers and other users.

Cite

Please cite these papers if Dynamo is useful in your research: