A curated list of packages and tools using Synapse R, Python, React clients inspired by other awesome-* lists.
- portals - React component based configurations that generate community portals built on top of Synapse
- Collaboration Portal - Prototype Collaboration Portal
- Agora
- 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.
- knit2synapse - Knit Rmarkdown files to Synapse wikis
- 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
- dccvalidator - package and Shiny app to perform data validation and QA/QC
- 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
- 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
- challengeutils - Synapse challenge utility functions + more
- synapseformation - Client for using 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
- 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.
- NRGRSynapseGlue - This is the integration of NRGR and Synapse, linking data access approval in NRGR to data access in Synapse.
- EvaluationStatistics - This application computes statistics on the evaluation queues in Synapse.
- Synapse-User-Geolocation - An application to geolocate all Synapse users and display them on a map.
- 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.
- Data Coordination Tools - This repository gathers existing tools used for data coordination at Sage.
- Sage-Bionetworks-Workflows - List of dockstore tools and workflows.
- Sage-Bionetworks-Challenges - Sage Bionetworks hosts crowdsourcing challenges that examine questions in biology and medicine.