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Changes between Version 3 and Version 4 of MSCContract
- Timestamp:
- Feb 14, 2019, 3:08:54 PM (7 years ago)
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MSCContract
v3 v4 41 41 == Potential application areas == 42 42 43 == Medical imaging and optical microscopy visualization ==43 == 1) Medical imaging and optical microscopy visualization == 44 44 45 === Segmentation using VR ===45 === 1a) Segmentation using VR === 46 46 47 Use [http://www.simpleitk.org Simple ITK] in ChimeraX. [wiki:HurtITK Darrell Hurt says] NIAID has hired SimpleITK team 48 47 Use [http://www.simpleitk.org Simple ITK] in ChimeraX. [wiki:HurtITK Darrell Hurt says] NIAID has hired SimpleITK team. 48 49 49 Slicer [https://www.youtube.com/watch?v=BJoIexIvtGo&feature=youtu.be grow from seeds] segmentation, cardiac CT 50 51 50 52 51 Slicer [https://www.youtube.com/watch?v=0at15gjk-Ns&feature=youtu.be scissor projection tool], masking to sphere (volume eraser) for hip ball joint … … 55 54 Machine learning segmentation methods for medical images and [https://www.allencell.org/label-free-determination.html cell microscopy]. Need to investigate medical imaging methods that could be used 56 55 57 Segger watershed segmentation, especially hand mode used with[http://www.cgl.ucsf.edu/chimera/data/ncsm-nov2012/microscopy.html termite gut].56 Segger watershed segmentation, especially hand mode, an example illustrating method is [http://www.cgl.ucsf.edu/chimera/data/ncsm-nov2012/microscopy.html termite gut]. 58 57 59 58 Tools to adapt to VR: … … 64 63 - Masking to surface to create binary segmentation 65 64 66 === Medical imaging and optical microscopy visualization ===65 === 1b) Medical imaging and optical microscopy visualization === 67 66 68 67 - [https://www.allencell.org/photorealistic-cells.html Photorealistic lighting] from Allen Cell Science. … … 73 72 - Machine learning to [https://www.allencell.org/label-free-determination.html color organelles in cells]. [https://www.alleninstitute.org/what-we-do/cell-science/news-press/press-releases/machine-learning-technique-predict-human-cells-organization-published-nature-methods Video]. 74 73 75 == Molecular Modeling and Graphics in VR ==74 == 2) Molecular Modeling and Graphics in VR == 76 75 77 === Building molecular models in cryoEM using VR ===76 === 2a) Building molecular models in cryoEM using VR === 78 77 79 78 - ISOLDE in VR … … 86 85 - Interactive local energy minimization 87 86 88 === Molecular Analysis in VR ===87 === 2b) Molecular Analysis in VR === 89 88 90 89 * Presets … … 110 109 * Build Structure 111 110 112 == NIH 3D ==113 Web VR visualization 111 == 3) NIH 3D == 112 === 3a) Web VR visualization === 114 113 - Primarily for communication and education 115 114 - AltPDB. ChimeraX exports glTF scene used with !AltSpace to provide Web VR collaborative molecular PDB display (ribbons, surfaces, atoms). … … 118 117 - Could ChimeraX offer web browser connection for multiperson VR viewing-only mode? Or just export to an AltSpace or other social VR site with one button click? 119 118 120 3D printing needs 119 === 3b) 3D printing needs === 121 120 - Color printing format requirements 122 121 - Reduced level of detail controls 123 122 - Direct export from ChimeraX 124 123 125 == VR Development ==124 == 4) VR Development == 126 125 127 === User Interface Development ===126 === 4a) User Interface Development === 128 127 129 128 Task specific user interfaces … … 134 133 Speech recognition (controlled vocabulary and grammar) 135 134 136 === Training ===135 === 4b) Training === 137 136 138 137 Mixed reality video capture shows person and data. … … 147 146 Help desk 148 147 149 === Multiperson VR ===148 === 4c) Multiperson VR === 150 149 Remote and same room collaborative VR discussions. 151 150
