Package sc.fiji.snt.analysis.curation
package sc.fiji.snt.analysis.curation
Classes for curation of reconstructions, as implemented by the "Curation Assistant".
- Author:
- Tiago Ferreira
-
ClassDescriptionReserved
cur:*path tags used to record a path's review status after it has been examined in the Curation Assistant.Four-bucket breakdown returned byCurationTags.partitionByReviewStatus(Tree).InfersPlausibilityCheckthresholds from a collection of referenceTrees.Aggregated calibration results from a set of reference trees.Summary for a single calibrated parameter.Framework for evaluating the morphological plausibility of path operations and reconstructions.Warns when the bifurcation angle at a fork is outside a plausible range.Warns when a path has radii assigned but they are all identical (likely unfitted defaults).A heavier check that scans an entire collection of paths for issues.Warns when the child path's initial direction deviates sharply from the parent's tangent at the branch point (potential U-turn).A lightweight check that evaluates the plausibility of a single fork operation (parent + child + branch index).Detects paths that run very close to each other without being topologically connected.Warns when the child neurite's radius at the fork point exceeds the parent's radius at the branch point.Detects abrupt radius jumps between adjacent nodes within a path.Detects sustained radius increases along a path (neurites should generally taper distally).Severity levels for plausibility warnings.Assesses local image signal quality around traced paths and flags those in regions with poor contrast.Warns when a primary path starts far from any soma node.Warns when a terminal branch is suspiciously short.Warns when child and parent have very different tortuosity (contraction).A plausibility warning produced by a check.Monitors tracing and editing operations for morphological plausibility.Listener interface for warning list changes.