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• Averaging of subtomograms
  Averaging of subtomograms means applying an available set of alignment parameters onto a set of data particles and adding them together. Because ...particle outside an interior sphere will be discarded to minimize [[Border alignment artifact | rotation artifacts]] <br />- default value is 1.
  5 KB (818 words) - 16:09, 6 December 2017
• Adaptive bandpass filtering
  [[Category: Multireference alignment‏‎]] The "golden standard" methodology is a widespread method to drive the alignment process avoiding overfitting and providing an accepted estimation of the at
  4 KB (666 words) - 07:10, 28 November 2017
• Walkthrough on command line based tilt series alignment (EMBO2021)
  ...sed mode. The [[Walkthrough on GUI based tilt series alignment | GUI based alignment walkthrough]] shows how to operate this procedure through the GUI. Here, we The following commands create a new alignment workflow in a separate folder. Make sure ''Dynamo'' is loaded and running (
  6 KB (875 words) - 16:06, 6 September 2021
• Helical symmetry
  == Using symmetrization in alignment projects==
  3 KB (429 words) - 13:32, 1 June 2016
• Materials Basel 2018
  ...oductionAlignmentProjects.pdf tutorial on] the basic concept in ''Dynamo'' alignment: the ''project''. === Alignment and reconstruction ===
  4 KB (604 words) - 20:43, 29 August 2018
• Getting a Structure from Multiple Tomograms of HIV Capsids
  ...tomograms through the Dynamo catalogue and to develop good strategies for alignment projects to reach a reasonable structure from a set of tomograms. This is a ...s used in the tutorial (adapted to the different pixelsize) for your first alignment projects.
  3 KB (489 words) - 13:16, 27 August 2020
• Downloads
  We are restructuring our modules for alignment of tilt series and classification. Next stable releases will come in winter * CTF hand check in automated tilt series alignment.
  4 KB (640 words) - 13:28, 30 August 2023
• Walkthrough on command line based tilt series alignment (Copenhagen 2024)
  This last tutorial on tilt series alignment is command line based. When woking under high data regimes, it is, perhaps, The following commands create a new alignment workflow in a separate folder. So, as recommended before, make sure you iso
  5 KB (808 words) - 18:08, 22 January 2024
• Walkthrough on command line based tilt series alignment (SciLifeLab 2023)
  This last tutorial on tilt series alignment is command line based. When woking under high data regimes, it is, perhaps, The following commands create a new alignment workflow in a separate folder. So, as recommended before, make sure you iso
  5 KB (809 words) - 18:08, 22 January 2024
• Particle picking
  ...a single [[data folder]] that can be used to design an [[alignment project|alignment project]]
  2 KB (340 words) - 11:31, 23 February 2017
• Why is GPU not available for classification?
  ...onto the same piece of data. This is an optimal situation for direct space alignment, where the same template is rotated many times and compared to a given part
  715 bytes (111 words) - 11:10, 19 April 2016
• Walkthrough on command line based tilt series alignment (EMBO2023)
  This last tutorial on tilt series alignment is command line based. When woking under high data regimes, it is, perhaps, The following commands create a new alignment workflow in a separate folder. So, as recommended before, make sure you iso
  6 KB (840 words) - 12:06, 9 September 2023
• Scripted creation of a project in the Linux command line
  ...older]], a [[table]],a template, and several masks (for [[Alignment mask|alignment]], classification, description of fourier content of template and [[Smoothi
  2 KB (400 words) - 09:05, 22 September 2016
• GPUs Basel 2019
  The main idea is to create an alignment project on your local machine, move it to the sciCORE cluster and then run ...ith 128 particles in the directory <code>myParticles</code> and a tutorial alignment project <code>myProject</code>.
  4 KB (740 words) - 10:51, 27 August 2019
• Main Page
  ...to [[Particle picking|pick particles]] and create [[Subtomogram alignment|alignment]] and [[Classification |classification projects]] to be run on different [
  2 KB (279 words) - 07:13, 29 March 2022
• Data folder
  ...lder is the minimal input that the [[dcp GUI]] needs in order to create an alignment project. ...{{t|myData}} can then be used as {{t|data folder}} parameter when creating alignment and classification projects,
  4 KB (637 words) - 15:48, 30 September 2019
• GPUs Basel 2018
  The main idea is that we create an alignment project locally, move it to the cluster on sciCORE and then run it using a ...ith 128 particles in the directory <code>myParticles</code> and a tutorial alignment project <code>myProject</code>.
  4 KB (691 words) - 13:22, 27 August 2018
• Integration with Warp and M
  * automated fiducial based tilt-series alignment ...ew [[Walkthrough on command line based tilt series alignment | tilt series alignment tools]]
  6 KB (992 words) - 11:47, 19 August 2020
• Example data sets
  Want to design and alignment problem? Here are some tips:
  885 bytes (127 words) - 16:34, 2 May 2016
• GPU
  ==Using the GPU in an alignment project== ...ltireference alignment inherits the "GPU-friendliness" of single reference alignment: the cc of many rotations of the template against the particle can be compu
  5 KB (902 words) - 06:44, 2 September 2016

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