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• Principal component analysis
  [[Category:Classification]] ...'PCA classification'' is loosely used. PCA is not a classification method: classification itself is performed on the features extracted through PCA.
  3 KB (424 words) - 19:03, 28 March 2020
• Cross correlation matrix
  [[Category:classification]] ...and restricted to a region in direct space (indicated by a classification mask). The pseudo code will run as:
  3 KB (471 words) - 12:16, 19 April 2016
• Dcp GUI
  ...drawing is available through <tt>dpkvol.montage</tt> (activating the menu Mask). ===== Alignment mask =====
  3 KB (503 words) - 23:57, 13 September 2017
• Hints for improving a refinement
  === Static Classification=== ...want to start this approach using as classification mask the ''alignment'' mask that was used by your last alignment project.
  5 KB (720 words) - 15:53, 19 May 2016
• Scripted creation of a project in the Linux command line
  ...classification, description of fourier content of template and [[Smoothing mask|smoothing while FSC computing]]). If you don't you can just run (in the lin dynamo_vpr_put prtest -mask ttest/mask.em
  2 KB (400 words) - 11:05, 22 September 2016
• Construction of masks
  ...ignment, restricting the area of the aligned particles that will count for classification, avoiding FSC artifacts, placing aligned averages back in a tomogram.... ...ight be necessary to have a finer control on the process of constructing a mask. ''Dynamo'' includes several tools:
  6 KB (943 words) - 11:58, 14 September 2017
• Multireference alignment
  ...te the [[Multireference analysis]] approach for simultaneous alignment and classification. ...ide mask that includes enough signal to drive the alignment, and a smaller mask, defined on the region where you expect or want to check for structural het
  4 KB (592 words) - 22:58, 6 June 2018
• Alignment project
  ...tireference alignment]] project that operates simultaneously alignment and classification. ...rier mask on template]] is used in very few special cases. The [[smoothing mask]] is the one used for computing Fourier Shell Correlations.
  5 KB (793 words) - 09:41, 27 October 2017
• Data folder
  ...an then be used as {{t|data folder}} parameter when creating alignment and classification projects, == Fourier Mask on particles==
  4 KB (637 words) - 17:48, 30 September 2019
• Table column convention
  When a particle is indicated to have a custom mask, then the [[data folder]] needs to include a volume file with zeros and one ...ference" can be seen as a "class" produced by multireference alignment and classification.
  5 KB (721 words) - 19:41, 8 March 2018
• Walkthrough on PCA through the command line
  ...area of each alignment particle that will be taken into account during the classification procedure. === Mask ===
  14 KB (1,969 words) - 23:58, 8 February 2021
• Starters guide
  * Classification ...uding particle picking, initial model generation, alignment, averaging and classification or particles. ''Dynamo'' has a standalone to be run in high performance com
  24 KB (3,775 words) - 16:39, 6 September 2021
• Postprocessing plugins
  * [Simple] Online definition of mask, depending on the average computed in the iteration. * [Advanced] Fine tuning of [[MRA]] policy by PCA classification after each iteration.
  7 KB (1,043 words) - 19:07, 9 March 2017
• Starters guide (EMBO2021)
  ...correlation which eliminates the artefacts associated with hard (non-soft) mask. =Subtomogram classification=
  15 KB (2,422 words) - 16:17, 13 September 2021
• Starters guide (workshop version)
  ...correlation which eliminates the artefacts associated with hard (non-soft) mask. =Subtomogram classification=
  15 KB (2,427 words) - 19:27, 3 September 2021
• Walkthrough on adaptive bandpass filtering
  ...ignment and classification masks, and full cubes for smoothing and fourier mask of template.
  10 KB (1,461 words) - 20:12, 27 November 2017