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    56 repositories

    • allele-frequency-browser

      Public
      JavaScript
      •
      Apache License 2.0
      •0•0•0•0•Updated Nov 1, 2024Nov 1, 2024

    • beacon2-pi-api

      Public
      Beacon v2 Production Implementation (API)
      Python
      •
      Apache License 2.0
      •2•0•0•0•Updated Oct 31, 2024Oct 31, 2024

    • beacon2-ri-tools-v2

      Public
      Python
      •
      Apache License 2.0
      •5•1•5•1•Updated Oct 30, 2024Oct 30, 2024

    • beacon2-ri-api

      Public
      Beacon v2 Reference Implementation (API)
      JavaScript
      •
      Apache License 2.0
      •38•16•16•8•Updated Oct 28, 2024Oct 28, 2024

    • ega-biomongo-tools

      Public
      BioMongoDB is envisioned as a MongoDB database to facilitate the storage of information derived from various initiatives within the BioTeam.
      Python
      •
      Apache License 2.0
      •2•0•0•0•Updated Oct 23, 2024Oct 23, 2024

    • LocalEGA

      Public
      A federated storage for sensitive data
      elixiregacrglocalegacrypt4ghega-archive
      Python
      •
      Apache License 2.0
      •16•7•0•0•Updated Oct 11, 2024Oct 11, 2024

    • EuCanImage-FHIR

      Public
      EuCanImage FHIR ETL
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Oct 2, 2024Oct 2, 2024

    • beacon-verifier-v2

      Public
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Oct 2, 2024Oct 2, 2024

    • beacon2-ri-api-images

      Public
      Beacon v2 Images Reference Implementation (API)
      JavaScript
      •
      Apache License 2.0
      •38•0•0•0•Updated Sep 25, 2024Sep 25, 2024

    • ega-download-client

      Public
      A Python-based EGA download client
      Python
      •
      Apache License 2.0
      •52•94•19•3•Updated Sep 20, 2024Sep 20, 2024

    • beacon-ri-documentation

      Public
      TypeScript
      •
      Apache License 2.0
      •0•0•0•0•Updated Sep 5, 2024Sep 5, 2024

    • fega-metadata-schema

      Public
      Repository dedicated to the development of the Federated EGA (FEGA) metadata schemas and documentation
      MIT License
      •0•1•0•0•Updated Aug 16, 2024Aug 16, 2024

    • crypt4gh-rust

      Public
      Rust implementation for the Crypt4GH encryption format
      cryptographyegaga4ghcrgcryptography-toolsega-archivecrypt4gh
      Rust
      •
      Apache License 2.0
      •2•5•1•0•Updated Aug 5, 2024Aug 5, 2024

    • crypt4gh

      Public
      GA4GH cryptographic tools
      cryptographyegaga4ghcrgcryptography-toolsega-archivecrypt4gh
      Python
      •
      Apache License 2.0
      •12•18•2•0•Updated Jul 11, 2024Jul 11, 2024

    • sarek-IMPaCT-data-QC

      Public
      Implementation of the IMPaCT-data quality control workflow for WES data in nf-core/sarek workflow. Which is an analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing.
      Nextflow
      •
      MIT License
      •407•0•0•0•Updated Jun 25, 2024Jun 25, 2024

    • FEGA-Portals

      Public
      Repository to track issues about FEGA Submission (UI & API) and Helpdesk portals
      Creative Commons Attribution Share Alike 4.0 International
      •0•1•7•0•Updated May 13, 2024May 13, 2024

    • LocalEGA-distribution

      Public
      Distribution system for a Federated EGA node
      C
      •
      Apache License 2.0
      •0•0•0•0•Updated Apr 19, 2024Apr 19, 2024

    • FEGA-onboarding

      Public
      Collection of onboarding materials for establishing a Federated EGA Node.
      elixiregacrgebicrypt4ghega-archivefederated-ega
      HTML
      •
      Creative Commons Attribution Share Alike 4.0 International
      •15•0•8•0•Updated Feb 23, 2024Feb 23, 2024

    • beacon2-ri-ui

      Public
      JavaScript
      •1•0•0•0•Updated Jan 11, 2024Jan 11, 2024

    • refgenDetector

      Public
      Tool to infer the human reference genome used to creat an alignment file.
      Python
      •
      Other
      •0•0•0•0•Updated Nov 16, 2023Nov 16, 2023

    • LocalEGA-inbox

      Public
      OpenSSH dropbox, with remote user credentials and notifications for file system events
      Dockerfile
      •
      Apache License 2.0
      •1•0•0•0•Updated Nov 15, 2023Nov 15, 2023

    • EGA-auth

      Public
      Linux NSS module for authentication of Federated EGA users
      C
      •
      Apache License 2.0
      •0•0•0•0•Updated Oct 20, 2023Oct 20, 2023

    • beacon2-ri-api-cancer

      Public
      Beacon v2 Cancer Reference Implementation (API)
      Python
      •
      Apache License 2.0
      •38•0•0•0•Updated Oct 3, 2023Oct 3, 2023

    • beacon2-ri-tools

      Public
      Beacon v2 Reference Implementation (Data ingestion tools)
      bioinformaticsmongodbgenomicsphenotypicreference-implementationbffphenopacketega-archivebeacon-v2beacon-friendly-format
      Perl
      •
      GNU General Public License v3.0
      •9•7•1•1•Updated Aug 8, 2023Aug 8, 2023

    • ega-zuulproxy

      Public
      A front end for the EGA data API. Required for ELIXIR integration. Provides Load Balancing, Traffic Shaping, Automated Retries.
      Java
      •
      Apache License 2.0
      •0•0•0•1•Updated Jun 20, 2023Jun 20, 2023

    • ega-quickview

      Public
      FUSE file system to access EGA files securely and remotely
      C
      •
      GNU Lesser General Public License v2.1
      •0•4•0•0•Updated May 12, 2023May 12, 2023

    • beacon-v2

      Public
      Unified repository for the GA4GH Beacon v2 API standard
      Creative Commons Zero v1.0 Universal
      •22•0•0•0•Updated May 10, 2023May 10, 2023

    • beacon-verifier

      Public
      Rust
      •0•1•0•0•Updated May 10, 2023May 10, 2023

    • ega-data-api

      Public
      javaegaega-archive
      Java
      •
      Apache License 2.0
      •3•2•7•16•Updated Apr 14, 2023Apr 14, 2023

    • ega-fuse-client

      Public
      A Java/JNR based FUSE virtual file system client to provide access to authorized EGA files via the EGA Data REST API (v3)
      Java
      •
      Apache License 2.0
      •7•6•0•1•Updated Jan 9, 2023Jan 9, 2023