A Novel Method for Finding Overlap Depth : Development of ArtiaX, a ChimeraX plugin

University essay from Linköpings universitet/Tillämpad matematik; Linköpings universitet/Tekniska fakulteten

Author: Gunnar Arctaedius; [2023]

Keywords: Cryo-electron tomography; image processing; surface visualization; overlap measurement; normal projection method; Kryoelektrontomografi; bildbehandling; ytvisualisering; överlapsmätning; normalprojektionsmetoden;

Abstract: Visualization and image filtering are important parts of cryo-electron tomography analysis. ArtiaX, a plugin developed for UCSF ChimeraX, has been extended to improve the functionality of these two parts. For the visualization, a method of moving 3D surfaces to remove overlap between them has been developed and implemented. To accommodate this, a Monte Carlo approach using Poisson disc sampling for approximating volume of overlap between 3D surfaces is used, and a novel method for measuring overlap has been invented, called the Normal Projection Method, useful for measuring the depth of overlap between surfaces. For the image filtering, tomogram averaging and frequency filters have been added to the ArtiaX toolbox.

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