Singlecell protein surface (ADT) pseudotime techniques
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EspressoKris ▴ 10
@84e617fb
Last seen 3 months ago
United Kingdom

Dear all,

I would like to run a pseudotime module on single cell protein surface (ADT) data from a haematopoietic dataset. I have about 40ish features but I am not aware of any algorithm that could suit well this scenario. Through my research I saw someone used Scorpius in the past but I am not sure.

Has anybody attempted this and if so, how did it go? Any help would be much appreciated!

monocle slingshot • 272 views
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How is this different from a "normal" pseudotime tracking other that in your case you give the ADT count matrix rather than the RNA matrix (or something like PCA based on it) to (for example) slingshot?

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I was thinking that they may not perform as well due to the low number of features and derived PCs. But I haven't tried them yet so I am unsure.

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