Changes between Version 1 and Version 2 of MSCContract


Ignore:
Timestamp:
Feb 14, 2019, 2:32:08 PM (7 years ago)
Author:
Conrad Huang
Comment:

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  • MSCContract

    v1 v2  
    3434== What does NIAID want? ==
    3535
    36 An key missing part of the picture is what exactly the MSC contract from NIAID
     36A key missing part of the picture is what exactly the MSC contract from NIAID
    3737is funding.  A subcontract would of course need to be aligned with the goals of
    3838the primary contract.  If we don't know those details then we may propose things
    3939that are not in the scope of what can be funded.
    4040
    41 == Interesting application areas ==
     41== Potential application areas ==
     42
     43== Medical imaging and optical microscopy visualization ==
    4244
    4345=== Segmentation using VR ===
    … …  
    6264   - Masking to surface to create binary segmentation
    6365
     66=== Medical imaging and optical microscopy visualization ===
     67
     68 - [https://www.allencell.org/photorealistic-cells.html Photorealistic lighting] from Allen Cell Science.
     69     
     70  - Presets for coloring [https://en.wikipedia.org/wiki/Hounsfield_scale#Value_in_parts_of_the_body different tissues]   
     71    * Horos
     72 - Smart initial coloring (bones, different organs or tissue types)
     73 - 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
     75== Molecular Modeling and Graphics in VR ==
     76
    6477=== Building molecular models in cryoEM using VR ===
    6578
    … …  
    7386 - Interactive local energy minimization
    7487
    75 === NIH 3D ===
     88=== Molecular Analysis in VR ===
    7689
    77 3D printing needs
    78   - Color printing format requirements
    79    - Reduced level of detail controls
     90* Presets
     91* Full menus
     92* Render/select by attribute (+ define attribute)
     93  * Residue conservation
     94  * ''Worms; ribbon color blending''
     95* Selection improvements
     96  * Multi-level selection-only undo/redo (left/right arrow keys)
     97  * More levels to selection hierarchy (including glycosylation level)
     98* Axes/planes/centroids
     99* ESP surface coloring
     100  * PQR charge info
     101  * Add Charge equivalent
     102* Tool GUIs (more usable in VR)
     103  * AddH
     104  * !MatchMaker
     105  * !Clashes/Contacts
     106  * FindHBond
     107* Chimera 1 session migration
     108* Thermal ellipsoids
     109* Rotamers
     110* Build Structure
    80111
     112== NIH 3D ==
    81113Web VR visualization
    82114  - Primarily for communication and education
    … …  
    86118 - 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?
    87119
    88 === Medical and optical image visualization ===
     1203D printing needs
     121  - Color printing format requirements
     122  - Reduced level of detail controls
     123  - Direct export from ChimeraX
    89124
    90  - [https://www.allencell.org/photorealistic-cells.html Photorealistic lighting] from Allen Cell Science.
    91      
    92   - Presets for coloring [https://en.wikipedia.org/wiki/Hounsfield_scale#Value_in_parts_of_the_body different tissues]   
    93     * Horos
    94  - Smart initial coloring (bones, different organs or tissue types)
    95  - 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].
    96        
    97        
     125== VR Development ==
    98126
    99 === VR training ===
     127=== User Interface Development ===
     128
     129Task specific user interfaces
     130  - Drug binding analysis user interface
     131  - Medical imaging
     132  - Optical microscopy
     133  - cryoEM modelling
     134Speech recognition (controlled vocabulary and grammar)
     135
     136=== Training ===
    100137
    101138Mixed reality video capture shows person and data.
    … …  
    106143Multiperson VR sessions for remote training, possibly group training.
    107144
     145Written tutorials and user documentation
     146
    108147=== Multiperson VR ===
    109148Remote and same room collaborative VR discussions.
    110149
    111150Allow any participant to bring in new data.
    112 
    113 Task specific user interfaces
    114   -  Drug binding analysis user interface
    115   - Medical imaging
    116   - Optical microscopy
    117   - cryoEM modelling