how to annotate the celltype

[zhendejuzi]

I am using cellxgene for single-cell data analysis. Suppose I have a new dataset x.h5ad, how can I map its cell types to the cell types in cellxgene?

[MaximilianLombardo]

Hi @zhendejuzi, one clarification - you are looking to use a model to automatically annotate cell types in your new data set using a tool like Azimuth?

We have experimented with adding this functionality in the past, however this was only a prototype and is likely not functional at the moment due to some dependency issues.

Can you share any more information about your use case?

[zhendejuzi]

Hi @MaximilianLombardo.
For example, I came across a dataset in an article, such as "A single-cell atlas of human and mouse white adipose tissue, PMID: 35296864" (or other articles/data in the future). Now, I would like to standardize the single-cell data from the study and re-annotate the cell types so that they are consistent with the data types and cell types in your cellxgene platform. I would like to know how to proceed, especially how to map the cell annotations from the authors of the article to your unified cell annotations([UBERON][CL]). Is there a convenient pipeline or code available for this purpose?