This directory contains high-level workflow diagrams illustrating how Xenium transcript data are processed through ROI cropping and punkst / FICTURE for different analysis scenarios.
Each workflow is provided as an SVG flowchart to support:
- conceptual understanding
- reproducibility
- poster and presentation use
Applies punkst / FICTURE to a single Xenium sample, optionally after ROI-based transcript cropping.
📄 Diagram:
Jointly analyzes multiple Xenium samples using shared latent factors, with support for ROI-cropped inputs and large-scale orchestration.
📄 Diagram:
These diagrams are intended to describe logical data flow, not exact command syntax. Implementation details may vary depending on dataset size and compute environment.