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• Adding models to catalogued volumes
  {{t| myCatalogue/volume_2/models/someModel.omd}} {{t| dwrite(myModel,'myCatalogue/volume_2/models/myModel.omd')}}.
  3 KB (482 words) - 16:54, 23 February 2017
• Matlab cell array
  === Loops on models === ...ing [[membrane models]], you frequently use a given series of [[membrane models#Command line| commands]].
  6 KB (1,039 words) - 17:09, 23 February 2017
• Workshop exercises
  === Command line manipulation of sets of models === ...the approach of saving a ''Model workflow'' and reuse it later on a set of models defined inside the ''Catalogue'' manager <tt>dcm</tt>. This technique may p
  4 KB (698 words) - 10:30, 1 September 2016
• Montage viewer for membrane picking
  ...y spherical. If they depart too much from sphericity, you can use membrane models, as done in this walkthrough. == Addition of further models==
  5 KB (872 words) - 23:03, 20 August 2017
• Catalogue
  === Relinking models === ...dcm</tt> with flag <tt> synchronize </tt> tuned to the literal value <tt> models </tt>, i.e.
  5 KB (855 words) - 22:28, 14 August 2017
• Dynamo catalogue tutorial
  ...allows you to create a catalogue with some small tomograms and predefined models so that you can play with it before using the catalogue on your own data se
  642 bytes (98 words) - 16:10, 27 April 2016
• Dtmslice
  ...ogue, and to a particular volume inside the catalogue. This means that the models that are imported, edited and/or saved will be automatically submitted to t ...e as an auxiliary image that is also interactive, allowing the creation of models or the navegation in the tomogram.
  10 KB (1,696 words) - 15:59, 27 November 2020
• Seed oversampling
  [[Category:Models]] ...d, as membranes or pseudo crystals. The {{t|crop_points}} generated by the models after the geometric computation stage are not supposed to realistically be
  4 KB (683 words) - 13:51, 3 February 2017
• Cropping table
  === From models === Generating tables is the very reason models exist. If you want to generate the table corresponding to a single model {{
  5 KB (787 words) - 14:49, 23 May 2018
• Vesicle models
  Vesicle models are appropriate when particles are evenly distributed on surfaces reasonabl === From dipole set models ===
  10 KB (1,585 words) - 11:00, 24 February 2017
• Cropping unbinned particles after having worked with binned particles
  ...t, comprising 3 full sized tomograms, each one containing already a model. Models are simple clouds of points. Now we import the models residing in the "unbinned catalogue''. Note that in "real life" you do not
  8 KB (1,292 words) - 18:50, 6 February 2020
• Programmatic depiction of objects in tomograms
  == Models == Models have different plotting methods attached.
  6 KB (1,013 words) - 17:34, 30 October 2017
• Filament model
  Filament models are used for geometries where location and orientation of particles to be c ...ns along the path of the filament and picking the central point. Different models are available for the different relationships between the "backbone" of the
  6 KB (944 words) - 16:29, 15 August 2016
• Example of membrane model workflow through the command line
  ...the operations typically operated by the cropping workflow of a [[membrane models|membrane model]]. ...g of membrane modes) are the ones listed in the description of [[Membrane models#Command line | command line methods attached to this model]]. <br>
  4 KB (585 words) - 20:53, 1 February 2017
• Particle extraction
  ...es''. A new GUI will popup, with a list of models. You can then select the models that already contain ''crop points''). Then click on ''Create list''. This ...opping information in a text file: a list of tomogram files, and a list of models or tables to be used on each tomogram. For instance:
  7 KB (1,221 words) - 16:46, 24 April 2018
• Walkthrough on placement of averages on table positions
  === As several volume models === ...e previous one, we are using the same starting isolevel for the individual models, and also we are passing the order to Chimera to open the surface that we c
  6 KB (925 words) - 11:14, 13 March 2017
• File access through predefined profiles
  A frequently happening example are the tomograms and models in the [[catalogue]]. If you produced your catalogue in the linux machine, ...the calatogue gui to "relink" the tomograms (and linking elements in the models) to the mac convention. This works, but is rather tedious. Moreover, it als
  5 KB (870 words) - 16:07, 25 June 2018
• Walkthrough on manual marker clicking
  == Extended fitting models == ...wer error value, this might be due to overfitting. Thus, richer parametric models should not be used if you don't have enough markers on each micrograph (in
  9 KB (1,526 words) - 20:10, 13 July 2021
• Walkthrough on filament models
  ...t subtomograms from filament-like structures using the ''Dynamo'' filament 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
  6 KB (1,042 words) - 16:52, 12 August 2021
• Filament types code example
  % we create a cell array variable containing all models so that we can loop on it
  3 KB (325 words) - 16:29, 15 August 2016

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