8000 Question on deconvolution using CARD · Issue #82 · YMa-lab/CARD · GitHub
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Question on deconvolution using CARD #82

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wzdrgi opened this issue Nov 1, 2024 · 1 comment
Open

Question on deconvolution using CARD #82

wzdrgi opened this issue Nov 1, 2024 · 1 comment

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@wzdrgi
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wzdrgi commented Nov 1, 2024

CARD is a very wonderful piece of work and I have recently used CARD to deconvolve my spatial transcriptomic data, but the inputs to the reference dataset have also raised a question for me. It is very difficult for the spatial transcriptomic data to appear identical to the reference dataset in terms of cell types, so I am curious to know how CARD manages cell types that are present in the spatial data but absent in the reference dataset. Looking forward to your reply!
@karJac
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karJac commented Feb 18, 2025

From my understanding CARD has no mechanisms for identyfing cell types absent in the single cell references. It just give label based on the closest similarity to the reference, even if the score is low.

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