https://github.com/georgeoshardo/symbac
Accurate segmentation of bacterial microscope images using synthetically generated image data.
https://github.com/georgeoshardo/symbac
Keywords
biology image-processing microscopy segmentation synthetic-biology
Keywords from Contributors
report
Last synced: 11 months ago
JSON representation
Acceptance Criteria
- Revelant topics? true
- External users? true
- Open source license? true
- Active? true
- Fork? false
Repository metadata
Accurate segmentation of bacterial microscope images using synthetically generated image data.
- Host: GitHub
- URL: https://github.com/georgeoshardo/symbac
- Owner: georgeoshardo
- License: gpl-2.0
- Created: 2021-02-09T02:57:35.000Z (about 4 years ago)
- Default Branch: main
- Last Pushed: 2024-06-04T22:48:28.000Z (11 months ago)
- Last Synced: 2024-06-05T00:17:09.852Z (11 months ago)
- Topics: biology, image-processing, microscopy, segmentation, synthetic-biology
- Language: Jupyter Notebook
- Homepage: https://doi.org/10.1186/s12915-022-01453-6
- Size: 157 MB
- Stars: 17
- Watchers: 4
- Forks: 9
- Open Issues: 6
- Releases: 0
-
Metadata Files:
- Readme: README.md
- Changelog: CHANGELOG.md
- License: LICENSE
- Citation: CITATION.cff
Owner metadata
- Name: Georgeos Hardo
- Login: georgeoshardo
- Email:
- Kind: user
- Description: Systems biology PhD student
- Website:
- Location: Cambridge
- Twitter: Georgeos_
- Company: University of Cambridge
- Icon url: https://avatars.githubusercontent.com/u/9086047?v=4
- Repositories: 4
- Last ynced at: 2023-03-05T18:58:34.588Z
- Profile URL: https://github.com/georgeoshardo
GitHub Events
Total
- Create event: 9
- Issues event: 24
- Watch event: 23
- Delete event: 6
- Member event: 1
- Issue comment event: 51
- Public event: 1
- Push event: 198
- Pull request review event: 4
- Pull request event: 28
- Fork event: 11
Last Year
- Create event: 3
- Delete event: 3
- Fork event: 2
- Issue comment event: 30
- Issues event: 12
- Member event: 1
- Pull request event: 4
- Pull request review event: 1
- Push event: 21
- Watch event: 7
Committers metadata
Last synced: over 1 year ago
Total Commits: 298
Total Committers: 7
Avg Commits per committer: 42.571
Development Distribution Score (DDS): 0.141
Commits in past year: 40
Committers in past year: 2
Avg Commits per committer in past year: 20.0
Development Distribution Score (DDS) in past year: 0.025
| Name | Commits | |
|---|---|---|
| Georgeos Hardo | g****o@p****m | 256 |
| georgeoshardo | g****o@g****m | 29 |
| erezli | 6****i | 8 |
| Georgeos Hardo | g****4@c****k | 2 |
| Daoxin Zhong | d****g@h****k | 1 |
| Charlie Wedd | 5****3 | 1 |
| LGTM Migrator | l****r | 1 |
Committer domains:
- hmc.ox.ac.uk: 1
- cam.ac.uk: 1
Issue and Pull Request metadata
Last synced: 11 months ago
Total issues: 30
Total pull requests: 16
Average time to close issues: 4 months
Average time to close pull requests: 26 days
Total issue authors: 7
Total pull request authors: 7
Average comments per issue: 1.7
Average comments per pull request: 0.69
Merged pull request: 12
Bot issues: 0
Bot pull requests: 2
Past year issues: 7
Past year pull requests: 3
Past year average time to close issues: 2 months
Past year average time to close pull requests: 3 months
Past year issue authors: 4
Past year pull request authors: 3
Past year average comments per issue: 4.29
Past year average comments per pull request: 0.33
Past year merged pull request: 2
Past year bot issues: 0
Past year bot pull requests: 0
Top Issue Authors
- georgeoshardo (16)
- kmpape (8)
- cmalinmayor (2)
- crtorreg (1)
- DustinBaek (1)
- henriquenunez (1)
- tauzn-clock (1)
Top Pull Request Authors
- erezli (6)
- georgeoshardo (5)
- tauzn-clock (1)
- bunirules (1)
- dependabot[bot] (1)
- CharlieW313 (1)
- lgtm-com[bot] (1)
Top Issue Labels
Top Pull Request Labels
- dependencies (1)
Package metadata
- Total packages: 1
-
Total downloads:
- pypi: 192 last-month
- Total dependent packages: 0
- Total dependent repositories: 1
- Total versions: 13
- Total maintainers: 1
pypi.org: symbac
A package for generating synthetic images of bactera in phase contrast or fluorescence. Used for creating training data for machine learning segmentation and tracking algorithms.
- Homepage: https://github.com/georgeoshardo/SyMBac
- Documentation: https://symbac.readthedocs.io/
- Licenses: GPL-2.0
- Latest release: 0.4.0 (published about 1 year ago)
- Last Synced: 2024-06-05T00:22:22.506Z (11 months ago)
- Versions: 13
- Dependent Packages: 0
- Dependent Repositories: 1
- Downloads: 192 Last month
-
Rankings:
- Dependent packages count: 10.06%
- Forks count: 11.931%
- Stargazers count: 14.188%
- Average: 18.654%
- Dependent repos count: 21.634%
- Downloads: 35.455%
- Maintainers (1)
Dependencies
- matplotlib *
- sphinx_automodapi *
- elasticdeform ==0.4.9
- ipywidgets *
- joblib *
- jupyterlab *
- matplotlib ==3.4.3
- napari *
- natsort ==7.1.1
- pandas ==1.3.4
- scikit-image ==0.18.3
- tensorflow ==2.8.0
- tifffile ==2021.10.12
- tqdm *
- actions/checkout v3 composite
- github/codeql-action/analyze v2 composite
- github/codeql-action/autobuild v2 composite
- github/codeql-action/init v2 composite
Score: 10.349262524047791