Germinate
An open source plant database infrastructure and application programming platform on which complex data from genetic resource collections can be stored, queried and visualized.
https://github.com/germinateplatform/germinate-vue
Category: Biosphere
Sub Category: Plants and Vegetation
Keywords
chemical-compounds climate-data database genetics genotypes germinate mysql pedigree phenotypes plant-genetic-resources vuejs website
Last synced: about 12 hours ago
JSON representation
Repository metadata
Germinate is an open source plant database infrastructure and application programming platform on which complex data from genetic resource collections can be stored, queried and visualized.
- Host: GitHub
- URL: https://github.com/germinateplatform/germinate-vue
- Owner: germinateplatform
- License: apache-2.0
- Created: 2019-08-08T19:44:24.000Z (over 5 years ago)
- Default Branch: master
- Last Pushed: 2025-03-25T10:59:33.000Z (about 1 month ago)
- Last Synced: 2025-04-19T15:56:17.813Z (7 days ago)
- Topics: chemical-compounds, climate-data, database, genetics, genotypes, germinate, mysql, pedigree, phenotypes, plant-genetic-resources, vuejs, website
- Language: Vue
- Homepage: https://ics.hutton.ac.uk/get-germinate
- Size: 10.6 MB
- Stars: 16
- Watchers: 3
- Forks: 4
- Open Issues: 6
- Releases: 35
-
Metadata Files:
- Readme: README.md
- License: LICENSE
- Code of conduct: CODE_OF_CONDUCT.md
- Citation: CITATION.cff
README.md
Germinate - The generic plant genetic resources database
Germinate is an open source plant database infrastructure and application programming platform
on which complex data from genetic resource collections can be stored, queried and visualized
using common, reusable, programming components. Germinate utilises modern web and database
standards to provide a common architecture and high performance web-based user interface and
analytics functionality across a wide variety of data types including: passport, phenotypic,
field trial, pedigree, genetic, climatic, geographic location data as well as user-submitted
annotations. In addition, it provides links to an expanding variety of external visualization
and analysis tools such as Helium for pedigree visualization,
Flapjack for graphical genotyping and
CurlyWhirly for 3D coordinate data.
The single point of access for all background data on genetic resources collections that
Germinate implements, provides a valuable digital curation resource as well as offering
essential continuity on how new data is recorded and presented to researchers and breeders
which brings focus and facilitates community building into research communities.
Website
Want to know more? Browse our homepage (https://ics.hutton.ac.uk/get-germinate)
Interactive Demo Instance
If you want to explore Germinate and try out all the features, have a play about with our demo database.
Download
Please consult the online documentation for a variety of options to download and run Germinate yourself.
Contact
If you have any questions or suggestions, please send us an email on [email protected] or post an issue.
Acknowledgements
The Germinate Team gratefully acknowledges support by the following organizations who have generously provided us with open source licenses for their software products:
Lokalise
We use Lokalise to manage Germinate's translations.
Funders
We are very grateful for the funding Germinate has received over the years. Below is a list of our main funders who we have worked with closely during the development of Germinate.
Citation (CITATION.cff)
cff-version: 1.2.0 identifiers: - description: This is our latest publication on Germinate in Crop Science. type: doi value: "10.1002/csc2.20248" - description: This is our publication on Germinate 3 in Crop Science. type: doi value: "10.2135/cropsci2016.09.0814" message: If you use this software, please cite it using these metadata. repository-code: "https://github.com/germinateplatform/germinate-vue" title: "Germinate - The plant genetic resources database" version: 4.4.2 license: Apache-2.0 keywords: - "plant genetic resources" - genotyping - phenotyping - mcpd - passport - pedigree - trials - database date-released: 2020-06-30 authors: - family-names: "Raubach" given-names: "Sebastian" orcid: "https://orcid.org/0000-0001-5659-247X" - family-names: "Kilian" given-names: "Benjamin" - family-names: "Dreher" given-names: "Kate" orcid: "https://orcid.org/0000-0003-4652-4398" - family-names: "Amri" given-names: "Ahmed" - family-names: "Bassi" given-names: "Filippo" name-particle: M orcid: "https://orcid.org/0000-0002-1164-5598" - family-names: "Boukar" given-names: "Ousmane" - family-names: "Cook" given-names: "Douglas" - family-names: "Cruickshank" given-names: "Alan" orcid: "https://orcid.org/0000-0002-7982-1746" - family-names: "Fatokun" given-names: "Christian" - family-names: "El Haddad" given-names: "Noureddine" - family-names: "Humphries" given-names: "Alan" orcid: "https://orcid.org/0000-0002-8700-4340" - family-names: "Jordan" given-names: "David" - family-names: "Kehel" given-names: "Zakaria" - family-names: "Kumar" given-names: "Shiv" - family-names: "Labarosa" given-names: "Sandy Jan" - family-names: "Nguyen" given-names: "Loi Huu" - family-names: "Mace" given-names: "Emma" - family-names: "McCouch" given-names: "Susan" - family-names: "McNally" given-names: "Ken" - family-names: "Marshall" given-names: "David F." orcid: "https://orcid.org/0000-0001-9309-2570" - family-names: "Mikwa" given-names: "Erick Owuor" - family-names: "Milne" given-names: "Iain" orcid: "https://orcid.org/0000-0002-4126-0859" - family-names: "Odeny" given-names: "Damaris Achieng" orcid: "https://orcid.org/0000-0002-3629-3752" - family-names: "Plazas" given-names: "Mariola" - family-names: "Prohens" given-names: "Jaime" orcid: "https://orcid.org/0000-0003-1181-9065" - family-names: "Rieseberg" given-names: "Loren H." - family-names: "Schafleitner" given-names: "Roland" - family-names: "Sharma" given-names: "Shivali" orcid: "https://orcid.org/0000-0001-5314-484X" - family-names: "Stephen" given-names: "Gordon" - family-names: "Tin" given-names: "Huynh Quang" - family-names: "Togola" given-names: "Abou" orcid: "https://orcid.org/0000-0001-6155-8292" - family-names: "Warschefsky" given-names: "Emily" - family-names: "Werner" given-names: "Peter" - family-names: "All our CWR Pre-Breeding Partners and Collaborators" given-names: "." - family-names: "Shaw" given-names: "Paul D." orcid: "https://orcid.org/0000-0002-0202-1150"
Owner metadata
- Name: Germinate
- Login: germinateplatform
- Email: [email protected]
- Kind: organization
- Description:
- Website: https://ics.hutton.ac.uk/get-germinate
- Location:
- Twitter:
- Company:
- Icon url: https://avatars.githubusercontent.com/u/30867214?v=4
- Repositories: 7
- Last ynced at: 2023-03-04T23:14:58.974Z
- Profile URL: https://github.com/germinateplatform
GitHub Events
Total
- Release event: 8
- Watch event: 3
- Delete event: 4
- Push event: 28
- Create event: 7
Last Year
- Release event: 8
- Watch event: 3
- Delete event: 4
- Push event: 28
- Create event: 7
Committers metadata
Last synced: 7 days ago
Total Commits: 535
Total Committers: 1
Avg Commits per committer: 535.0
Development Distribution Score (DDS): 0.0
Commits in past year: 42
Committers in past year: 1
Avg Commits per committer in past year: 42.0
Development Distribution Score (DDS) in past year: 0.0
Name | Commits | |
---|---|---|
sebastian-raubach | s****h@h****k | 535 |
Committer domains:
- hutton.ac.uk: 1
Issue and Pull Request metadata
Last synced: 1 day ago
Total issues: 11
Total pull requests: 22
Average time to close issues: 12 days
Average time to close pull requests: 7 days
Total issue authors: 6
Total pull request authors: 2
Average comments per issue: 2.73
Average comments per pull request: 0.73
Merged pull request: 4
Bot issues: 0
Bot pull requests: 18
Past year issues: 0
Past year pull requests: 0
Past year average time to close issues: N/A
Past year average time to close pull requests: N/A
Past year issue authors: 0
Past year pull request authors: 0
Past year average comments per issue: 0
Past year average comments per pull request: 0
Past year merged pull request: 0
Past year bot issues: 0
Past year bot pull requests: 0
Top Issue Authors
- BoMeyering (3)
- illxi (2)
- fogliafabrizio (2)
- sebastian-raubach (2)
- fishpm-anu (1)
- brunopnogueira92 (1)
Top Pull Request Authors
- dependabot[bot] (18)
- sebastian-raubach (4)
Top Issue Labels
- question (5)
- bug (3)
- confirmed (2)
- enhancement (2)
- documentation (1)
- wontfix (1)
- security (1)
Top Pull Request Labels
- dependencies (18)
Dependencies
- 1198 dependencies
- @babel/core ~7.12.16 development
- @babel/eslint-parser ~7.12.16 development
- @vue/cli-plugin-babel ~5.0.0 development
- @vue/cli-plugin-eslint ~5.0.0 development
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- @vue/cli-service ~5.0.0 development
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- eslint-plugin-import ~2.25.3 development
- eslint-plugin-node ~11.1.0 development
- eslint-plugin-promise ~5.1.0 development
- eslint-plugin-vue ~8.0.3 development
- querystring-es3 ~0.2.1 development
- sass ~1.32.7 development
- sass-loader ~12.0.0 development
- vue-template-compiler ~2.6.14 development
- @mdi/js ~6.6.96
- axios ~0.26.1
- bootstrap ~4.6.1
- bootstrap-vue ~2.22.0
- bootswatch ~4.6.1
- citation-js ~0.5.7
- core-js ~3.8.3
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- dagre-d3 ~0.6.4
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- leaflet ^1.8.0
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- leaflet.sync ~0.2.4
- path-browserify ~1.0.1
- plotly.js ~2.11.1
- simplex-noise ~2.4.0
- tiny-emitter ~2.1.0
- vue ~2.6.14
- vue-cool-lightbox ~2.7.1
- vue-gtag ~1.16.1
- vue-i18n ~8.27.1
- vue-plausible ~1.3.1
- vue-router ~3.5.1
- vue-sidebar-menu ~4.8.1
- vue-typeahead-bootstrap ~2.12.0
- vue-upload-component ~2.8.22
- vue2-leaflet ~2.7.1
- vuedraggable ~2.24.3
- vuex ~3.6.2
- vuex-persistedstate ~4.1.0
- zxcvbn ~4.4.2
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Score: 3.091042453358316