Glossary
- spatial location
General easydecon term for one row of the spatial expression table.
- spot
A platform-specific capture location.
- bin
A spatial aggregation unit, often from binned Visium HD data.
- segmented cell
A cell-shaped spatial unit from an upstream segmentation workflow.
- marker
A gene used as positive evidence for a marker group.
- anti-marker
A gene used as negative evidence for a group in UCell-like scoring.
- presence marker
A marker role used for Phase 1 presence evidence.
- identity marker
A marker role used for Phase 2 identity evidence.
- Phase 1
Marker-expression evidence step that produces raw evidence and normalized priors.
- Phase 2
Marker-profile similarity or rank-evidence step that produces raw evidence and likelihoods.
- prior
Row-normalized Phase 1 support for which groups are plausible at each spatial location.
- likelihood
Normalized Phase 2 evidence for each marker group at each spatial location.
- posterior
Relative support from combining priors and likelihoods.
- assignment
Hard label selected from
assignment_df.- abstention
Leaving a spatial location unassigned because evidence is zero, tied, or below assignment thresholds.
- candidate pruning
Optional Phase 2 optimization that scores only groups with sufficient Phase 1 prior support.
- PreparedMarkers
Reusable, spatial-unfiltered marker preparation.
- conditional subtype score
Refined subtype support within parent-positive locations.
- absolute subtype score
Conditional subtype support multiplied by the parent score.
- spatial niche
Cluster of local composition profiles derived from posterior-like support matrices.