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https://github.com/inab/openebench-hub
https://github.com/inab/openebench-hub
openebench
Last synced: 5 days ago
JSON representation
- Host: GitHub
- URL: https://github.com/inab/openebench-hub
- Owner: inab
- License: cc-by-4.0
- Created: 2019-03-07T10:17:46.000Z (over 5 years ago)
- Default Branch: master
- Last Pushed: 2023-04-24T10:51:59.000Z (over 1 year ago)
- Last Synced: 2024-04-15T09:21:02.816Z (7 months ago)
- Topics: openebench
- Homepage:
- Size: 43 KB
- Stars: 1
- Watchers: 11
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Awesome Lists containing this project
README
# OpenEBench Repositories Hub
| **Repository** | **Definition** |
| ---------------------------------------------------------------------------------- | ------------------------------------------------------------------------- |
| [openebench-hub][openebench-hub-link] | Hub to centralize all OEB repositories |
| **Backend** |
| [openEBench_vre][openEBench_vre-link] | OpenEBench Virtual Research Environment |
| [benchmarking-data-model][benchmarking-data-model-link] | Data model used internally on OEB |
| (GitLab) [openebench-data-model][openebench-data-model-link] | Java classes for the OpenEBench data model |
| (GitLab) [openebench-validator-tool][openebench-validator-tool-link] | The tool to verify OpenEBench database consistency |
| (GitLab) [openebench-distiller-tool][openebench-distiller-tool-link] | Tool for migration OpenEBench data from provisional to production database |
| [openEBenchAPI][openEBenchAPI-link] | RESTful API to access ELIXIR Benchmarking data store |
| (GitLab) [openebench-rest-api][openebench-rest-api-link] | REST API for protected OpenEBench data access |
| (GitLab) [openebench-security-docs][openebench-security-docs-link] | Documentation about OpenEBench security (OpenID, UMA2, KC, etc.) |
| (GitLab) [oeb-sci-admin-tools][oeb-sci-admin-tools-link] | Several internal OpenEBench command line tools which use the REST APIs |
| [OEB_level2_data_migration][OEB_level2_data_migration-link] | Tool which takes the provisional JSON files from assessment and generates JSON contents ready to be stored in the database through the usage of the REST APIs or the admin tools |
| [bench_event_api][bench_event_api-link] | REST API to compute different clustering metrics over the participants of an scientific event |
| **Submission** | |
| [opeb-submission][opeb-submission-link] | OpenEBench submission infrastructure |
| (GitLab) [openebench-submission-api][openebench-submission-api-link] | OpenEBench API for data submission |
| [benchmarking][benchmarking-link] | API to submit benchmarking data |
| _(To Archive)_ [opeb-submission-api][opeb-submission-api-link] | OpenEBench submission API |
| **Tools monitoring** |
| [biotools-bioconda-ids][biotools-bioconda-ids-link] | ID mapping among the ELIXIR tools platform resources |
| [opeb-enrichers][opeb-enrichers-link] | OEB entries enrichers with information from publications and repositories |
| [elixibilitas][elixibilitas-link] | Quality Metrics tool for Elixir BioTools Registry |
| (GitLab) [elixibilitas-dao][elixibilitas-dao-link] | OEB tools monitoring MongoDB API |
| (GitLab) [elixibilitas-metrics-checker][elixibilitas-metrics-checker-link] | OEB tools metrics generator |
| (GitLab) [openebench-bioconda-importer][openebench-bioconda-importer-link] | Import bioconda data from a git repository |
| (GitLab) [openebench-repository-client][openebench-repository-client-link] | OpenEBench REST API client classes |
| (GitLab) [openebench-tools-model][openebench-tools-model-link] | OpenEBench Java Tools model |
| (GitLab) [openebench-biotools-importer][openebench-biotools-importer-link] | Import biotools data from a git repository |
| (GitLab) [openebench-metrics-model][openebench-metrics-model-link] | OpenEBench Java Metrics Model |
| (GitLab) [openebench-git-populous][openebench-git-populous-link] | Exports OpenEBench metrics data into biotools content git server |
| (GitLab) [biotools-git-populous][biotools-git-populous-link] | Populates biotools data into a git repository |
| (GitLab) [bioconda-git-populous][bioconda-git-populous-link] | |
| (GitLab) [biotools-schema-model][biotools-schema-model-link] | Java JAXB model classes for biotoolsSchema |
| **Frontend** |
| [openEbench-frontend][openEbench-frontend-link] | OpenEBench Frontend Web Application |
| [OpenEBench_scientific_visualizer][OpenEBench_scientific_visualizer-link] | Visualization of scientific benchmarking results |
| [open-styles][open-styles-link] | Static content and styles for openebench |
| _(Archived)_ [~~openEBenchFrontend-archived~~][openEBenchFrontend-archived-link] | ~~Frontend of OEB~~ |
| _(To Archive)_ [~~openEBench-widgets~~][openEBench-widgets-link] | ~~Metrics widget~~ |
| [bench_event_table][bench_event_table-link] | Component to represent the overall results of a scientific event, in table format |
| **OpenEBench scientific Communities Repositories** |
| [TCGA_benchmarking_workflow][TCGA_benchmarking_workflow-link] | Example pipeline to assess results and compare metrics with TCGA results |
| [TCGA_benchmarking_dockers][TCGA_benchmarking_dockers-link] | OpenEBench TCGA visualizer Docker declarations |
| [benchmarking_workflows_results_visualizer][benchmarking_workflows_results_visualizer-link] | Visualize benchmarking results from the TCGA community in a 'D3.js' chart |
| _(Archived)_ [~~mg-process_TCGA_CD~~][mg-process_TCGA_CD-link] | ~~TCGA CD VRE wrapper~~ |
| [openebench_gmi][GMI_benckmarking_workflow-link] | OpenEBench GMI pipeline to assess results and compare metrics with GMI results |
| [APAeval (external)][APAeval-link] | OpenEBench APAeval community pipeline to assess results |
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This work is licensed under a Creative Commons Attribution 4.0 International License.
[openebench-hub-link]: https://github.com/inab/openebench-hub
[openEBench_vre-link]: https://github.com/inab/openEBench_vre
[benchmarking-data-model-link]: https://github.com/inab/benchmarking-data-model
[opeb-enrichers-link]: https://github.com/inab/opeb-enrichers
[openEBenchAPI-link]: https://github.com/inab/openEBenchAPI
[elixibilitas-link]: https://github.com/inab/elixibilitas
[benchmarking-link]: https://github.com/inab/benchmarking
[biotools-bioconda-ids-link]: https://github.com/inab/biotools-bioconda-ids
[opeb-submission-link]: https://github.com/inab/opeb-submission
[opeb-submission-api-link]: https://github.com/inab/opeb-submission-api
[openEbench-frontend-link]: https://github.com/inab/openEbench-frontend
[openEBenchFrontend-archived-link]: https://github.com/inab/openEBenchFrontend-archived
[open-styles-link]: https://github.com/inab/open-styles
[openEBench-widgets-link]: https://github.com/inab/openEBench-widgets
[OpenEBench_scientific_visualizer-link]: https://github.com/inab/OpenEBench_scientific_visualizer
[TCGA_benchmarking_workflow-link]: https://github.com/inab/TCGA_benchmarking_workflow
[TCGA_benchmarking_dockers-link]: https://github.com/inab/TCGA_benchmarking_dockers
[benchmarking_workflows_results_visualizer-link]: https://github.com/inab/benchmarking_workflows_results_visualizer
[mg-process_TCGA_CD-link]: https://github.com/inab/mg-process_TCGA_CD
[GMI_benckmarking_workflow-link]: https://github.com/inab/openebench_gmi
[APAeval-link]: https://github.com/iRNA-COSI/APAeval
[openebench-validator-tool-link]: https://gitlab.bsc.es/inb/elixir/openebench/openebench-validator-tool
[openebench-data-model-link]: https://gitlab.bsc.es/inb/elixir/openebench/openebench-data-model
[openebench-submission-api-link]: https://gitlab.bsc.es/inb/elixir/openebench/openebench-submission-api
[openebench-distiller-tool-link]: https://gitlab.bsc.es/inb/elixir/openebench/openebench-distiller-tool
[openebench-rest-api-link]: https://gitlab.bsc.es/inb/elixir/openebench/openebench-rest-api
[openebench-security-docs-link]: https://gitlab.bsc.es/inb/elixir/openebench/openebench-security-docs
[oeb-sci-admin-tools-link]: https://gitlab.bsc.es/inb/elixir/openebench/oeb-sci-admin-tools
[OEB_level2_data_migration-link]: https://github.com/inab/OEB_level2_data_migration
[elixibilitas-dao-link]: https://gitlab.bsc.es/inb/elixir/tools-platform/elixibilitas/elixibilitas-dao
[elixibilitas-metrics-checker-link]: https://gitlab.bsc.es/inb/elixir/tools-platform/elixibilitas/elixibilitas-metrics-checker
[openebench-bioconda-importer-link]: https://gitlab.bsc.es/inb/elixir/tools-platform/openebench-bioconda-importer
[openebench-repository-client-link]: https://gitlab.bsc.es/inb/elixir/tools-platform/openebench-repository-client
[openebench-tools-model-link]: https://gitlab.bsc.es/inb/elixir/tools-platform/openebench-tools-model
[openebench-biotools-importer-link]: https://gitlab.bsc.es/inb/elixir/tools-platform/openebench-biotools-importer
[openebench-metrics-model-link]: https://gitlab.bsc.es/inb/elixir/tools-platform/openebench-metrics-model
[openebench-git-populous-link]: https://gitlab.bsc.es/inb/elixir/tools-platform/openebench-git-populous
[biotools-git-populous-link]: https://gitlab.bsc.es/inb/elixir/tools-platform/biotools-git-populous
[bioconda-git-populous-link]: https://gitlab.bsc.es/inb/elixir/tools-platform/bioconda-git-populous
[biotools-schema-model-link]: https://gitlab.bsc.es/inb/elixir/tools-platform/biotools-schema-model
[bench_event_api-link]: https://github.com/inab/bench_event_api
[bench_event_table-link]: https://github.com/inab/bench_event_table