Draft Status
Ready - team will start page creating immediately
Category
Infrastructure
Key Investigators
- Steve Pieper (Isomics, Inc., USA)
Project Description
As part of the MorphoCloud project, we have developed a MorphoDepot, as 3D Slicer extension that is already available and in use.
The goals are to help organize work related to 3D imaging, primarily for biological morphology applications. Initial target is segmentation of microCT scans of animals. In the future it could expand to applications like landmarking and other annotation / analysis tasks.
The extension relies heavily on GitHub as the back-end, with each scan being associated with a repository, and segmentation tasks being managed by issues and pull requests. The system is working and is in the early stages of real-world usage and we are collecting feedback about usability.
The system uses the Github CLI, gh, to interact with Github but has some performance issues and sometimes the API is throttled due to quota restrictions.
Objective
- Make the Project Week community aware of this extension
- Gather feedback about possible other use cases for similar technology and explore possible collaborations
- Get ideas about how to improve performance to scale up to more users and repositories.
Approach and Plan
- Give demos to any interested parties
- Discuss github actions and other ways to optimize the gh data process
Progress and Next Steps
- Describe specific steps you have actually done.
Illustrations
No response
Background and References
No response
Draft Status
Ready - team will start page creating immediately
Category
Infrastructure
Key Investigators
Project Description
As part of the MorphoCloud project, we have developed a MorphoDepot, as 3D Slicer extension that is already available and in use.
The goals are to help organize work related to 3D imaging, primarily for biological morphology applications. Initial target is segmentation of microCT scans of animals. In the future it could expand to applications like landmarking and other annotation / analysis tasks.
The extension relies heavily on GitHub as the back-end, with each scan being associated with a repository, and segmentation tasks being managed by issues and pull requests. The system is working and is in the early stages of real-world usage and we are collecting feedback about usability.
The system uses the Github CLI, gh, to interact with Github but has some performance issues and sometimes the API is throttled due to quota restrictions.
Objective
Approach and Plan
Progress and Next Steps
Illustrations
No response
Background and References
No response