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@timtreis timtreis commented Mar 28, 2025

@timtreis timtreis marked this pull request as draft March 28, 2025 16:52
@timtreis timtreis added enhancement ✨ New feature or request image 🔬 squidpy2.0 Everything releated to a Squidpy 2.0 release sdata compat 🌌 release-added labels Mar 28, 2025
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timtreis commented May 16, 2025

Note to self:

  • Doesn't correctly parse str names of channels
    INFO Calculating 'cpmeasure' correlation features between channels '0' and '1'.

  • Should show, for permutations, the total number of iterations (in general, the progress bar should contain a (step n out m) readout so one can know how far in the featurisation is. Can easily take more than a day given the amount of cells and cpu_cores. Should also maybe show the total runtime so far for the steps that are done

  • Fails if labels and image don't have the same dimensions, despite transformation to align them

@timtreis timtreis marked this pull request as ready for review September 11, 2025 20:15
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Tried it out and it worked very well!

One quality of life feature would be the ability to specify channels that should be measured.

Often times there are channels that are not informative / used only for segmentation and those slow down the calculations.

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