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Specify image key in comseg patches
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  • src/methods_transcript_assignment/comseg

src/methods_transcript_assignment/comseg/script.py

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -36,7 +36,7 @@
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del sdata["segmentation_boundaries"]["label"] # make_transcript_patches will create a new label column and fails if one exists.
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# Make patches
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sopa.make_image_patches(sdata, patch_width=par["patch_width"], patch_overlap=par["patch_overlap"])
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sopa.make_image_patches(sdata, image_key="morphology_mip", patch_width=par["patch_width"], patch_overlap=par["patch_overlap"])
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transcript_patch_args = {
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"sdata": sdata,

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