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    680 repositories

    • Genie

      Public
      Validation and processing of GENIE files
      pythonetlgeniedpecomponc
      Python
      •
      MIT License
      •9•15•2•3•Updated Dec 7, 2025Dec 7, 2025

    • Synapse-Stack-Review-Agenda

      Public
      This is the agenda for the weekly Synapse stack release meeting
      HTML
      •6•0•0•1•Updated Dec 6, 2025Dec 6, 2025

    • iatlas-cbioportal-export

      Public
      ETL pipeline for processing and exporting iAtlas files to be cBioportal ingestion ready
      Python
      •0•1•0•2•Updated Dec 6, 2025Dec 6, 2025

    • snowflake

      Public
      Snowflake Administration, Transformations, and Analytics
      snowflake
      Python
      •
      Apache License 2.0
      •4•5•0•4•Updated Dec 6, 2025Dec 6, 2025

    • agora-data-tools

      Public
      A place for Agora's ETL and Data Testing
      Python
      •
      Apache License 2.0
      •3•2•0•2•Updated Dec 6, 2025Dec 6, 2025

    • Synapse-Repository-Services

      Public
      The Synapse Repository Services project is the home of the JSON REST web services for Synapse.
      Java
      •
      Apache License 2.0
      •54•42•0•6•Updated Dec 6, 2025Dec 6, 2025

    • Synapse-Stack-Builder

      Public
      Project for building a complete Synapse Stack
      Java
      •
      Apache License 2.0
      •24•6•0•8•Updated Dec 6, 2025Dec 6, 2025

    • SynapseWebClient

      Public
      The web client of the Synapse REST service core
      JavaScript
      •
      Apache License 2.0
      •40•24•1•6•Updated Dec 6, 2025Dec 6, 2025

    • JustTheDocsDataDictionary

      Public
      An R package for generating content for JustTheDocs themed Schematic data model dictionary site on GitHub pages
      R
      •
      Other
      •0•2•0•0•Updated Dec 5, 2025Dec 5, 2025

    • synapse-web-monorepo

      Public
      Monorepo for Synapse Web projects
      TypeScript
      •
      Apache License 2.0
      •31•9•4•28•Updated Dec 5, 2025Dec 5, 2025

    • sage-monorepo

      Public
      ✨ Monorepo for OpenChallenges, Agora, and other open-source apps developed to advance open science and collaborative research.
      angularopenapimonorepofull-stackfairdeveloper-experiencenxagoradev-exspecification-first
      TypeScript
      •
      Apache License 2.0
      •15•26•125•6•Updated Dec 5, 2025Dec 5, 2025

    • synapsePythonClient

      Public
      Programmatic interface to Synapse services for Python
      pythonsynapse
      Python
      •
      Apache License 2.0
      •73•77•3•12•Updated Dec 5, 2025Dec 5, 2025

    • genie-data-model-planning

      Public
      R
      •0•0•0•0•Updated Dec 5, 2025Dec 5, 2025

    • shiny-base

      Public
      Base Docker image for Shiny applications
      Dockerfile
      •1•0•0•0•Updated Dec 5, 2025Dec 5, 2025

    • synapse-ops-core

      Public
      Synapse Ops scripts workflows and CDK+workflow for creating self-hosted runners
      Shell
      •
      Apache License 2.0
      •4•0•0•3•Updated Dec 4, 2025Dec 4, 2025

    • synapse-login-aws-infra

      Public
      scipoolsage-bionetworks-it
      Apache License 2.0
      •5•0•0•0•Updated Dec 3, 2025Dec 3, 2025

    • agora-data-manager

      Public
      Tool to manage agora data
      Shell
      •
      Apache License 2.0
      •10•0•0•0•Updated Dec 3, 2025Dec 3, 2025

    • Synapse-Code-Pipeline

      Public
      GitHub workflow to execute a Synapse job using Code Pipeline
      Apache License 2.0
      •1•0•0•0•Updated Dec 2, 2025Dec 2, 2025

    • genie-bpc-pipeline

      Public
      GENIE BPC pipeline scripts
      genie
      R
      •
      MIT License
      •1•4•0•4•Updated Dec 2, 2025Dec 2, 2025

    • scicomp-provisioner

      Public
      An service to auto provision resources
      Jinja
      •
      Apache License 2.0
      •45•1•0•0•Updated Dec 1, 2025Dec 1, 2025

    • data_curator_config

      Public
      Project configurations for the Data Curator App
      22•2•0•0•Updated Dec 1, 2025Dec 1, 2025

    • genie-bpc-bladder-landscape-manu

      Public
      Analyses related to the GENIE BPC Bladder cohort. Intended for a landscape manuscript.
      R
      •0•1•0•0•Updated Nov 30, 2025Nov 30, 2025

    • synapse-mcp

      Public
      Python
      •
      MIT License
      •0•2•0•1•Updated Nov 26, 2025Nov 26, 2025

    • genie-bpc-drug-off-label

      Public
      Repository for the code relating to off-label and off-guideline use of drugs in the BPC data.
      R
      •0•1•0•0•Updated Nov 25, 2025Nov 25, 2025

    • nbconvert-webapp

      Public
      Converts ipynb file into html. Packaged for Lambda deployment
      Python
      •2•0•0•0•Updated Nov 21, 2025Nov 21, 2025

    • model-ad-data-manager

      Public
      Shell
      •
      Apache License 2.0
      •3•0•0•1•Updated Nov 20, 2025Nov 20, 2025

    • service-catalog-library

      Public
      Library of service catalog templates
      scipool
      Apache License 2.0
      •9•0•0•1•Updated Nov 19, 2025Nov 19, 2025

    • GENIE-Sponsored-Projects

      Public
      This repository contains processing code for GENIE sponsored projects used for creating cBioPortal files
      genie
      Python
      •
      MIT License
      •1•5•5•1•Updated Nov 14, 2025Nov 14, 2025

    • genie-bpc-quac

      Public
      GENIE Biopharma Collaborative Quality Assurance Checklist
      genie
      R
      •
      MIT License
      •0•1•0•2•Updated Nov 14, 2025Nov 14, 2025

    • annotation-tools

      Public
      tools to allow annotation of vcf and maf files from a number of centers and merging the results
      Python
      •
      MIT License
      •15•0•0•2•Updated Nov 13, 2025Nov 13, 2025