Data preparation examples

• Export data to AWS S3
  • 1. Import dependencies
  • 2. Download and process data
  • 3. Create the Vitessce configuration
  • 4. Create a boto3 resource with S3 credentials
  • 5. Upload files to S3
  • 6. View on vitessce.io
• Export data to local files
  • 1. Import dependencies
  • 2. Download and process data
  • 3. Create the Vitessce configuration
  • 4. Export files to a local directory
  • 5. Serve the files
  • 6. View on vitessce.io
• Configure relative to a base_dir
  • 1. Import dependencies
  • 2. Define a base_dir
  • 3. Download the data
  • 4. Load the data
  • 4.1. Preprocess the Data For Visualization
  • 4.2 Save the Data to Zarr store
  • 5. Create the Vitessce widget configuration
  • 6. Create the widget
  • 7. Check the URLs in the configuration
• Visualization of single-cell RNA seq data from H5AD file
  • 0. Download data
  • 1. Create a Reference Spec JSON file for the H5AD file
  • 2. Create the Vitessce widget configuration
  • 3. Create the widget