Cell Quantification

Soma-oriented quantification for fluorescence images with clump splitting and axon suppression

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1. Images

Drop ND2, TIFF, or PNG files

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2. Image interpretation

Load an image to inspect channels and dimensions.

3. Soma detection

Show descriptions

Expected soma diameter range30–50 px

Minimum diameter30 px

Maximum diameter50 px

Sizes the detector expects; wider ranges include more soma sizes.

Detection sensitivity40

Higher finds more candidates; lower is stricter.

Clump splitting45

Higher splits touching clumps more aggressively.

Axon rejection100

Higher rejects thin, line-like axons more strongly.

Minimum signal80%

Higher requires stronger black or white soma signal.

Min soma area (px)

Max clump area (px)

Cell polarityAuto

4. Current result & groups

0cells

0automatic

0manual

Load a microscopy image
The automatic pass finds soma-scale blobs, splits touching clusters, and rejects structures that are too thin or line-like.

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marker color = group+ center = manualexcluded region