WebAtlas pipeline

This Nextflow pipeline processes spatial and single-cell experiment data for visualisation in WebAtlas App. The pipeline generates data files for supported data types, and builds a view config.

Documentation

• Installation
• Environment setup
• Configuration
• Running
• Visualising
• Demos
• Testing
• Modules

Indices and tables

• Index

• Module Index

• Search Page

Multimodal

• Multimodal overview
  • Tasks completed by the pipeline
  • Running the multimodal pipeline
• Multimodal configuration
  • Parameters file
• Multimodal run
  • Running using Docker
  • Running using Singularity
  • Running using Conda
  • Further reading
• Multimodal visualision