Job: 3D Variability Display

3D variability display.


Create various versions of a 3D variability result that can be used for display. Read a tutorial here.


  • Particles (from 3D Variability Analysis)

  • Volume (from 3D Variability Analysis)

Common Parameters

  • Output mode:

    • simple mode: output a simple linear "movie" of volumes along each dimension. Number of frames is the next param.

    • cluster mode: fit clusters to reaction coordinates and output volumes and particles from each cluster. Number of clusters is the next param.

    • intermediates mode: reconstruct multiple intermediate volumes along each variability dimension, useful for better visualizing non-linear changes. Number of intermediate frames is the next param.

  • Intermediates: window (frames):

    • Size of rolling window in each bin (in number of frames). Set to a positive integer to define a triangular weighting function for each volume. Set to 0 for a tophat weighting function. Set to -1 to create bins with equal number of particles.


  • Volume series of each variability component

  • [Optionally] particles for each cluster or intermediate frame

  • [Optionally] volume for each cluster or intermediate frame

Common Next Steps

  • Visualization of results through UCSF Chimera or similar.

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