Seurat cluster label transfer

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2.7 years ago

jackxu • 0

I have a quick question: Let's say we integrate single-cell datasets "object_A" and "object_B" into "object_AB" using Seurat CCA integration. In the integrated "object_AB", we have new clusters with new cluster labels as "0, 1, 2, ...11". If I want to transfer these clusters labels to the UMAP projection of the original "object_A" based on corresponding cells' names (or barcode IDs), what kind of code could we use? After I transfer the cluster label, what kind of code can we run to project the object_AB cluster labels (0, 1, 2, ......11) onto the original UMAP of object_A ? I need to do these with Seurat in Rstudio.

Note that the cell names (or barcode IDs) of object_A and object_B changed in "object_AB" with the addition of suffix underline and numbers.

Please see attached image for "object_A" and "object_B" into "object_AB".

enter image description here

label transfer cluster Seurat • 2.3k views

ADD COMMENT • link updated 2.7 years ago by Ram 44k • written 2.7 years ago by jackxu • 0

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You need to be a bit more specific regarding what you tried and the tools you are using. If you are talking about seurat the website has a very detailed tutorial: https://satijalab.org/seurat/articles/integration_mapping.html

ADD REPLY • link 2.7 years ago by fracarb8 ★ 1.7k

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Thanks for your reply. I added a table and modify my question to be more clear. Do you have any suggestions? Thanks!