https://github.com/google-research/sofima
Scalable Optical Flow-based Image Montaging and Alignment
Science Score: 26.0%
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○CITATION.cff file
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✓codemeta.json file
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✓.zenodo.json file
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○DOI references
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○Academic publication links
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○Committers with academic emails
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (12.2%) to scientific vocabulary
Keywords
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Repository
Scalable Optical Flow-based Image Montaging and Alignment
Basic Info
Statistics
- Stars: 81
- Watchers: 7
- Forks: 16
- Open Issues: 7
- Releases: 1
Topics
Metadata Files
README.md
SOFIMA
SOFIMA (Scalable Optical Flow-based Image Montaging and Alignment) is a tool for stitching, aligning and warping large 2d, 3d and 4d microscopy datasets.
This is not an officially supported Google product.
Installation
SOFIMA is implemented purely in Python, and does not require a build step. To install it directly from the repository, run:
shell
pip install git+https://github.com/google-research/sofima
Overview
SOFIMA uses optical flow regularized with an elastic mesh to establish maps between data in different coordinate systems. Both the flow estimator as well as the mesh solver are implemented in JAX and will automatically take advantage of GPU acceleration if the hardware if available.
A core data structure used throughout the project is a coordinate map stored as a dense array of relative offsets (see the module docstring in map_utils.py for details). Among other uses, this is the representation of the estimated flow fields and the mesh node positions.
Example usage
License
Licensed under the Apache License, Version 2.0 (the "License"); you may not use this software except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0.
Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.
Owner
- Name: Google Research
- Login: google-research
- Kind: organization
- Location: Earth
- Website: https://research.google
- Repositories: 226
- Profile: https://github.com/google-research
GitHub Events
Total
- Issues event: 2
- Watch event: 28
- Delete event: 17
- Issue comment event: 1
- Push event: 40
- Pull request review event: 1
- Pull request event: 37
- Fork event: 4
- Create event: 18
Last Year
- Issues event: 2
- Watch event: 28
- Delete event: 17
- Issue comment event: 1
- Push event: 40
- Pull request review event: 1
- Pull request event: 37
- Fork event: 4
- Create event: 18
Committers
Last synced: 5 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| Michal Januszewski | m****z@g****m | 39 |
| Tim Blakely | b****y@g****m | 27 |
| Jan-Matthis Lueckmann | j****s@g****m | 9 |
| Connectomics Team | n****y@g****m | 6 |
| Jake VanderPlas | v****s@g****m | 2 |
| Peter Hawkins | p****s@g****m | 2 |
| Michal Januszewski | m****z@u****m | 1 |
| Tomas Gancarcik | 1****m@u****m | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 5 months ago
All Time
- Total issues: 6
- Total pull requests: 122
- Average time to close issues: 6 months
- Average time to close pull requests: 12 days
- Total issue authors: 6
- Total pull request authors: 6
- Average comments per issue: 1.17
- Average comments per pull request: 0.11
- Merged pull requests: 62
- Bot issues: 1
- Bot pull requests: 116
Past Year
- Issues: 1
- Pull requests: 36
- Average time to close issues: 3 months
- Average time to close pull requests: about 7 hours
- Issue authors: 1
- Pull request authors: 1
- Average comments per issue: 0.0
- Average comments per pull request: 0.03
- Merged pull requests: 16
- Bot issues: 0
- Bot pull requests: 36
Top Authors
Issue Authors
- youssefmys (1)
- niltonlk (1)
- EmilieDel (1)
- Kimyongmin1018 (1)
- copybara-service[bot] (1)
- Matthijs-utf8 (1)
Pull Request Authors
- copybara-service[bot] (116)
- KyleLuther (2)
- TomasGancarcik (1)
- ganctom (1)
- mjanusz (1)
- jwong-nd (1)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
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Total downloads:
- pypi 48,910 last-month
- Total dependent packages: 0
- Total dependent repositories: 1
- Total versions: 1
- Total maintainers: 1
pypi.org: sofima
Scalable Optical Flow-based Image Montaging and Alignment
- Homepage: https://github.com/google-research/sofima
- Documentation: https://sofima.readthedocs.io/
- License: Apache Software License
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Latest release: 0.1
published almost 4 years ago