Issue on page /28_colocalization/counting_nuclei_multichannel.html

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Assessment

Difficulty
1/5
Estimated time
Under an hour
Newbie friendliness
70/100
Issue type
Bug
Clarity
Clearly specified
Activity status
Stale
Tech stack
jupyter-notebook, python
Domain
documentation

Research direction

Open /28_colocalization/counting_nuclei_multichannel.html and inspect the shown Python code block. Start with the maximum_distance assignment and the cle.proximal_other_labels_count_map(nuclei_cy3, nuclei_egfp) call; done means the example passes maximum_distance consistently with the issue request.

Written by the indexing model from the issue text.

Description

maximum_distance parameter is not passed to cle.proximal_other_labels_count_map() in the code block below

maximum_distance = 15 # pixels

draw a parametric map of cell counts

count_map = cle.proximal_other_labels_count_map(nuclei_cy3, nuclei_egfp)
cle.imshow(count_map, colorbar=True)

Dominant language
Cool
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157
Forks
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