Overview

This is the documentation for the CoGDat SARS-CoV-2 Genomics Data Platform submission system, which is powered by a DataMeta submission server. The submission portal itself is available at https://data.cogdat.de/.

Contents:

• About the CoGDat Portal
  • Architecture
  • General Concepts
  • Client Software
• CoGDat Metadata
  • Regular Metadata
• Web Client
  • User Registration
  • Account Management
  • Submitting Data
• Python-Based API Client
  • Installation
  • Configure the client to connect to a DataMeta server
  • Upload and submit data
• Using the REST API
  • Authentication to the API
  • API URL
  • Identifiers
  • Metadata Information
  • Metadata Uploads
  • File Uploads
  • Submissions
  • Querying Metadatasets
  • Service Executions
  • API Specification
• Installation and Deployment
  • Docker Compose Minimal
  • Docker Compose HTTPS
  • Native Installation
• Developer Information
  • Application Architecture
  • Visual Studio Code Setup