Nuclei Segmentation with Fiji

fijisegmentationfluorescencebioimagemcp

by Steffen Plunder

›_ claude — Round 1

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claude — Round 1

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Open @tests/examples/Osteosarcoma_01.tif with Fiji

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Fj Osteosarcoma_01.tif 1376×1104 · RGB · fluorescence

1376×1104 pixels; RGB

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claude — Round 2

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Please segment the nuclei. You can use plugins as see fit, try 10 different approaches (parameters or algorithms), inspect the results visually and select the best.

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Fj nuclei_blue Blue channel (DAPI)

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Approaches 1–5 Basic thresholding methods 5

Fj #1 Otsu (raw)

Fj #2 Triangle

Fj #3 Li

Fj #4 Gaussian + Otsu

Fj #5 Gauss + Otsu + WS

Approaches 6–10 Advanced methods 5

Fj #6 Median + Otsu + WS

Fj #7 Gauss + Triangle + WS

Fj #8 Phansalkar (local)

Fj #9 Gauss + Otsu + Open + WS ★

Fj #10 Huang + WS

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Fj Nuclei Segmentation Result 103 nuclei — Osteosarcoma_01.tif

103 nuclei detected · Approach #9

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fijisegmentationfluorescencebioimagemcp