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• EMBO workshop 2021
  | [[Walkthrough_on_filament_models | Models for filaments]] | [[Walkthrough_on_membrane_models | Models for surfaces]]
  6 KB (894 words) - 18:07, 11 September 2021
• Particle File List
  ...s when you start analysing your data set and you include new tomograms and models on a later stage.
  7 KB (1,151 words) - 13:01, 30 November 2020
• Hints for purchase of computing resources
  ...cropping, averaging, some steps in [[PCA]] analysis, manual management of models. Even [[alignment project]]s with modest number of particles can be reasona ...eed for running subtomogram averaging projects, and purchase more economic models like the ones described above is deemed safe.
  6 KB (966 words) - 15:34, 24 January 2022
• Walkthrough on membrane models
  ...uctures with large surfaces (e.g., membranes) using the ''Dynamo'' surface models. ...tomogram entry appears in the catalogue manager. Any further annotations (models) to the tomogram will be linked to this entry. Select the entry and open it
  7 KB (1,174 words) - 10:23, 13 August 2021
• Starters guide (EMBO2021)
  ...as other ''Dynamo'' browsers to keep track of your annotations: a pool of models. You might need to adjust the contrast (blue arrow). To move through the to Coordinates of picked particles are represented by data types called models. In the tomoslicer window go to ''Model Pool -> Create new model in pool (c
  15 KB (2,422 words) - 16:17, 13 September 2021
• Starters guide (workshop version)
  ...as other ''Dynamo'' browsers to keep track of your annotations: a pool of models. You might need to adjust the contrast (blue arrow). To move through the to Coordinates of picked particles are represented by data types called models. In the tomoslicer window go to ''Model Pool -> Create new model in pool (c
  15 KB (2,427 words) - 19:27, 3 September 2021
• Prebinned tomograms
  ...to declare in which catalogue we are opening the tomogram, i.e., where the models that we create during this session will be created. When you open a file by invoking one prebinned version, the models will be annotated with the right size (i.e., in voxel coordinates of the or
  7 KB (1,183 words) - 16:19, 28 April 2017
• Montage viewer
  ...sual application of the montage viewer is for the annotation of [[membrane models]], as explained with detail in the [[Montage viewer for membrane picking |w
  3 KB (414 words) - 14:54, 28 February 2017
• Materials Basel 2016
  * Filament models with <tt>dtmslice</tt>
  3 KB (413 words) - 11:12, 19 August 2016
• EMBO workshop 2016
  * Filament models with <tt>dtmslice</tt>
  3 KB (404 words) - 17:51, 31 August 2016
• Walkthrough on creation of 3d scenes
  Here <tt>-nc mySurf</tt> will look for models with the string "mySurf" in the name. You should get a reply as: <nowiki>Volume 1. Matching models: 1 (total: 1)
  13 KB (2,062 words) - 12:46, 29 November 2017
• ''Dynamo''workshop at the New York Structural Biology Center 2016
  * Filament models with <tt>dtmslice</tt>
  3 KB (436 words) - 16:09, 9 December 2016
• Materials Basel 2017
  * Filament models with <tt>dtmslice</tt>
  4 KB (538 words) - 09:58, 25 August 2017
• Starters guide
  ...as other ''Dynamo'' browsers to keep track of your annotations: a pool of models. Coordinates of picked particles are represented by data types called models. In the tomoslicer window go to ''Model Pool -> Create new model in pool (c
  24 KB (3,775 words) - 16:39, 6 September 2021
• Viewing tomograms
  ...arios factors, like "How big is the tomogram?" "Are you going to annotate models on them?". ...annotations produced on different versions of one tomogram. Coordinates of models and particles clicked on binned versions are stored in disk with the correc
  10 KB (1,652 words) - 11:49, 27 June 2018
• Materials Basel 2018
  * Filament models with <tt>dtmslice</tt>
  4 KB (604 words) - 22:43, 29 August 2018
• Hints for improving a refinement
  ...hen considering particles stemming from different tomograms (column 20) or models (column 21).
  5 KB (720 words) - 15:53, 19 May 2016
• Membrane models
  * you want to define precisely and (consequently for all models) the step between two z-levels, or
  5 KB (792 words) - 12:18, 28 February 2017
• Getting a Structure from Multiple Tomograms of HIV Capsids (walkthrough)
  ...defined. How to do that is described in detail in the section ''DipoleSet models'', ''Corrections during picking'' and ''Corrections after picking'' of the ...model for each tomogram. In cases where a different number of tomograms or models is used, the script has to be adapted accordingly.
  22 KB (3,572 words) - 14:13, 18 August 2021
• Materials Basel 2019
  * Filament models with <tt>dtmslice</tt>
  5 KB (698 words) - 15:17, 29 August 2019

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