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bioskills-interactive-annotation

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UpdatedJuly 6, 2026 at 12:06

Interactively annotate cell types in multiplexed imaging (IMC) data using napari visualization with marker overlays, then extract training data, propagate labels with KNN, and validate annotations.

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ai4nucleome

ai4nucleome/BioMaster

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Biological Scientists, All OtherLife, Physical, and Social Science Occupations·SOC 19-1029

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SKILL.md

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name	bioskills-interactive-annotation
description	Interactively annotate cell types in multiplexed imaging (IMC) data using napari visualization with marker overlays, then extract training data, propagate labels with KNN, and validate annotations.
domain	single-cell
primary_tool	napari
methods	["napari","scikit-image","scikit-learn","magicgui","matplotlib","pandas","numpy"]
macro_tags	["interactive-annotation","cell-typing","imaging","napari","training-data","imc"]
micro_tags	["napari","scikit-image","scikit-learn","magicgui","matplotlib","pandas","numpy","visualization","marker-overlay","annotation","export","batch","workflow","feature-extraction","training-data","regionprops","knn","classification","propagation","confidence","validation","qc"]
source	bioskills-interactive-annotation
status	active
enabled	true

Bioskills Interactive Annotation

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name	bioskills-interactive-annotation
description	Interactively annotate cell types in multiplexed imaging (IMC) data using napari visualization with marker overlays, then extract training data, propagate labels with KNN, and validate annotations.
domain	single-cell
primary_tool	napari
methods	["napari","scikit-image","scikit-learn","magicgui","matplotlib","pandas","numpy"]
macro_tags	["interactive-annotation","cell-typing","imaging","napari","training-data","imc"]
micro_tags	["napari","scikit-image","scikit-learn","magicgui","matplotlib","pandas","numpy","visualization","marker-overlay","annotation","export","batch","workflow","feature-extraction","training-data","regionprops","knn","classification","propagation","confidence","validation","qc"]
source	bioskills-interactive-annotation
status	active
enabled	true