A curated list of open technology projects to sustain a stable climate, energy supply, biodiversity and natural resources.

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
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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.

README.md

Germinate - The generic plant genetic resources database

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DOI

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


GitHub Events

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Last Year

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 Email Commits
sebastian-raubach s****h@h****k 535

Committer domains:


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

More stats: https://issues.ecosyste.ms/repositories/lookup?url=https://github.com/germinateplatform/germinate-vue

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

package-lock.json npm
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package.json npm
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Score: 3.091042453358316