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fix nuclei-less cells getting flagged as touching image border #85

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tanyasg opened this issue Dec 5, 2019 · 1 comment
Open

fix nuclei-less cells getting flagged as touching image border #85

tanyasg opened this issue Dec 5, 2019 · 1 comment
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tanyasg commented Dec 5, 2019

annotated cells that don't have nuclei are getting flagged as having a nucleus that touches the border of the image
@tanyasg tanyasg self-assigned this Dec 5, 2019
@donovanr donovanr closed this as completed May 7, 2020
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tanyasg commented Sep 10, 2020

Haven't fixed this but don't think it makes a difference in our downstream analysis. These are cells that have napariCell_nuclei_Count=0, finalnuc_border=TRUE, and cell_border=TRUE. finalnuc_border should be FALSE or NA b/c cellprofiler is not picking up a nucleus (either b/c there really is no nucleus, big chunk of nucleus is outside of fov, or nucleus is unusual in appearance like in dying/dead cell) and cell_border may or may not be TRUE

@tanyasg tanyasg reopened this Sep 10, 2020
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