Repositories list

• trimal

  Public
  A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0

  trimmingmultiple-sequence-alignmentbioinformatics-tool

  C++

  •

  GNU General Public License v3.0

  •43•193•32•2•Updated Jan 25, 2025Jan 25, 2025

• openEBench-nuxt-v3

  Public
  OpenEBench Micro Frontends. Nuxt 3 version

  vuenuxtjs2024

  Vue

  •

  Apache License 2.0

  •0•0•22•1•Updated Jan 25, 2025Jan 25, 2025

• WfExS-backend

  Public
  Workflow Execution Service Backend

  workflowsresearch-objecteosc-life+ 3wfexsejp-rdeosc-entrust

  Python

  •

  Apache License 2.0

  •6•18•25•0•Updated Jan 23, 2025Jan 23, 2025

• InSoLiTo

  Public
  Inferring Social Life of Tools (InSoLiTo) is an OpenEBench project that provide guidance on scientific tools worth benchmarking

  openebench

  Python

  •

  MIT License

  •2•2•13•0•Updated Jan 23, 2025Jan 23, 2025

• steers-community-aligners-example

  Public
  Nextflow

  •

  MIT License

  •0•1•0•0•Updated Jan 21, 2025Jan 21, 2025

• github-importer

  Public
  Imports GitHub metadata from repositories into the Software Observatory database.

  openebenchsoftware-observatory

  Python

  •

  MIT License

  •0•0•0•0•Updated Jan 16, 2025Jan 16, 2025

• oeb-widgets-graphs

  Public
  Graph widgets for OEB applications

  JavaScript

  •

  Apache License 2.0

  •0•0•0•0•Updated Dec 20, 2024Dec 20, 2024

• dockerized_vre

  Public
  JavaScript

  •1•0•0•0•Updated Dec 11, 2024Dec 11, 2024

• oeb-docker-compose

  Public
  Docker Compose Files for the OpenEBench Landscape

  frontendopenebench

  Apache License 2.0

  •1•1•0•0•Updated Dec 11, 2024Dec 11, 2024

• execution-process-metrics-collector

  Public
  A python script and a set of bash scripts to monitor, collect, and visualize metrics of a given Linux process or a give command line

  steers

  Shell

  •

  GNU General Public License v3.0

  •14•0•0•0•Updated Dec 10, 2024Dec 10, 2024

• observatory-api

  Public
  Software Observatory API

  fairsoftfastapifair-software+ 1software-metadata

  Python

  •

  MIT License

  •0•1•1•0•Updated Dec 4, 2024Dec 4, 2024

• vre-process_nextflow-executor

  Public
  Nexflow workflow job executor (for OpenEBench VRE installation)

  wrappernextflowvre+ 1openebench

  Python

  •

  Apache License 2.0

  •1•0•8•0•Updated Dec 4, 2024Dec 4, 2024

• benchmarking-data-model

  Public
  OpenEBench Benchmarking Data Model repository

  benchmarkingbackenddata-model+ 5scientificvreopenebenchelixir-europeelixir-spain

  HTML

  •

  Creative Commons Attribution Share Alike 4.0 International

  •7•2•7•0•Updated Dec 3, 2024Dec 3, 2024

• python-groovy-parser

  Public
  Repo with a proof of concept of Groovy parser

  Python

  •

  Apache License 2.0

  •0•0•1•0•Updated Nov 21, 2024Nov 21, 2024

• BioHackEU24_project_25_preprint

  Public
  BioHackathon Europe 2024 Project 25 preprint

  TeX

  •

  Creative Commons Zero v1.0 Universal

  •0•0•0•0•Updated Nov 12, 2024Nov 12, 2024

• oeb-visualizations

  Public
  Library of data visualizations for OpenEBench

  vueplotlyjsopenebench

  HTML

  •

  MIT License

  •0•0•2•1•Updated Oct 31, 2024Oct 31, 2024

• openEBench-nuxt

  Public
  Vue Client for the OpenEBench Micro Frontends

  openebench

  JavaScript

  •

  Apache License 2.0

  •2•2•3•12•Updated Oct 31, 2024Oct 31, 2024

• github-metadata-api

  Public
  API to extract metadata from a GitHub repository and update files.

  githubnodejsmetadata-extraction+ 1software-metadata

  JavaScript

  •0•1•1•1•Updated Oct 31, 2024Oct 31, 2024

• openVRE

  Public
  Open Virtual Research Environment

  javascripthtmlphp+ 2mongodbvre

  JavaScript

  •

  Apache License 2.0

  •3•8•0•0•Updated Oct 30, 2024Oct 30, 2024

• bench_event_api

  Public
  bench_event_api

  openebenchflask

  Python

  •

  GNU Lesser General Public License v2.1

  •3•1•0•0•Updated Oct 29, 2024Oct 29, 2024

• bench_event_table

  Public
  visualizationopenebench

  JavaScript

  •

  ISC License

  •1•1•1•7•Updated Oct 29, 2024Oct 29, 2024

• inab-login

  Public
  Login button for inab components

  Apache License 2.0

  •0•0•0•0•Updated Oct 24, 2024Oct 24, 2024

• w3id.org

  Public
  Website source code for w3id.org

  HTML

  •1.3k•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• inab-media-library

  Public archive
  A dedicated repository for hosting and managing multimedia content (videos, images, and graphics), serving as a centralized library for visual resources to support presentations and outreach efforts.

  0•0•0•0•Updated Oct 3, 2024Oct 3, 2024

• demo_oeb-widgets-graphs

  Public
  Demo in Javascript, React and PHP

  HTML

  •0•0•0•0•Updated Oct 1, 2024Oct 1, 2024

• benchmarking_workflows_results_visualizer

  Public
  openebenchelixir-europeelixir-spain

  JavaScript

  •

  GNU Affero General Public License v3.0

  •3•0•0•0•Updated Sep 27, 2024Sep 27, 2024

• hello-workflows

  Public
  Repository to store toy "hello world"-like sample workflows for different workflow engines. Mainly to be consumed by WfExS tests

  Nextflow

  •

  MIT License

  •0•0•0•0•Updated Sep 25, 2024Sep 25, 2024

• licenses-mapping

  Public
  A tool to map strings to SPDX licenses names or IDs.

  licensingspdxfastapi

  Python

  •

  Apache License 2.0

  •0•0•3•0•Updated Sep 12, 2024Sep 12, 2024

• InSoLiToAPI

  Public
  API of InSoLiTo where you can query a tool via API GET and it displays it in the webpage

  JavaScript

  •0•0•0•0•Updated Sep 10, 2024Sep 10, 2024

• oeb-messages

  Public
  OEB messages component

  JavaScript

  •

  Apache License 2.0

  •0•0•0•0•Updated Aug 7, 2024Aug 7, 2024