Shiny

• dccvalidator - package and Shiny app to perform data validation and QA/QC
• SynapseShinyApp - Basic Shiny application for use on Sage Bionetwork's Synapse web portal.
• data curator app - Shiny application to annotate and ingest metadata (manifest) files
• projectLive - Track the impact of our funding partners in real time
• Synodos_NF2 - Synodos Data Explorer(SyDE) Shiny App
• PCBC - PCBC Shiny Application
• shinyModules - independent shiny modules for plug n play between applications
• projectLive - Track the impact of our funding partners in real time

• syndccutils - Code for managing data coordinating operations (e.g., development of the CSBC/PS-ON Knowledge Portal and individual Center pages) for Sage-supported communities through Synapse.
• synapseAnnotations - Sage Bionetworks derived standards for annotating content in Synapse. This provide a mechanism for defining, managing, and implementing controlled vocabularies when annotating content in Synapse.
• sagethemes - The sagethemes package provides plot color palettes and themes that use the Sage Bionetworks branded colors.
• challengerutils - The R version of `challengeutils`
• dccmonitor - This package is intended to assist Sage Bionetworks data curators to check the status of metadata and documentation files uploaded via the dccvalidator shiny application
• mhealthtools - A modular R package for extracting features from mobile sensor data
• synapseforms - Wrappers for the [Synapse Forms Services API](https://docs.synapse.org/rest/#org.sagebionetworks.repo.web.controller.FormController).
• knit2synapse - Knit Rmarkdown files to Synapse wikis
• synapseAnnotations - Sage Bionetworks derived standards for annotating content in Synapse. This provide a mechanism for defining, managing, and implementing controlled vocabularies when annotating content in Synapse.

Shiny

• challengeutils - Synapse challenge utility functions + more
• s3-synapse-sync - Lambda function code to index files in S3 buckets by creating filehandles on Synapse, triggered by file changes to S3.
• schematic - Python package for Biomedical Data model and Data Ingress Management
• synapseformation - Client for using [Synapse Formation templates](https://github.com/Sage-Bionetworks/synapse-formation-templates).
• synapseMonitor - Monitor a Synapse Project / entities scoped by a Synapse file view.
• synapsegenie - Crawl through Synapse files to validate and process them given a plugin file format registry.
• prov-service - lightweight implementation of the Synapse Activity services, based on the PROV spec

Shiny

• NRGRSynapseGlue - This is the integration of NRGR and Synapse, linking data access approval in NRGR to data access in Synapse.
• Synapse-User-Geolocation - An application to geolocate all Synapse users and display them on a map.
• SynapseWorkflowOrchestrator - Links one or more Synapse Evaluation queues to a workflow engine. Each Evaluation queue is associated with a workflow template. Each submission is a workflow job, an instance of the workflow template. Upon submission to the Evaluation queue the Workflow Orchestrator initiates and tracks the workflow job, sending progress notifications and uploading log files.
• EvaluationStatistics - This application computes statistics on the evaluation queues in Synapse.

Shiny

• Sage-Bionetworks-Workflows - List of dockstore tools and workflows.
• Sage-Bionetworks-Challenges - Sage Bionetworks hosts crowdsourcing challenges that examine questions in biology and medicine.

Shiny

• CWL Synapse Client - CWL interface to Synapse command line.
• nextflow Synapse Client - Nextflow interface to Synapse command line.
• rare-disease-workflows - Workflows for processing rare disease data on Synapse.
• CWL Synapse Client - CWL interface to Synapse command line.
• nextflow Synapse Client - Nextflow interface to Synapse command line.

Shiny

• Data Coordination Tools - This repository gathers existing tools used for data coordination at Sage.