Lightweight measurement tools for BioImageFlow
Project description
bioimageflow-measurement-tools
Optional BioImageFlow package for object measurements, label counting, table summaries, and segmentation benchmark metrics.
Core libraries: imageio, NumPy, pandas, and BioImageFlow's ProcessingTool and
DataFrameTool APIs. The package should grow toward a compact CellProfiler-like
measurement layer while keeping deterministic public tests.
Tools
RegionPropertiesShapePropertiesIntensityPropertiesCountLabelsSummarizeTableLabelBenchmarkObjectMatchingMetricsDiceIoUAggregatePerImageNormalizeFeatures
Tests
Run package tests with:
uv run pytest packages/bioimageflow-measurement-tools/tests
The tests use generated label images, intensity images, and tables with exact expected values. Public-data workflow tests should assert stable ranges rather than commit large datasets.
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