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satijalab / seurat

R toolkit for single cell genomics
http://www.satijalab.org/seurat
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Add new.cell.ids to integration #7168

Closed KevinMaroney closed 1 year ago

KevinMaroney commented 1 year ago

Extremely simple request. When you merge seurat objects, there is an options called add.cell.id to each object. This is obviously useful as individual cell barcodes can overlap between different experiments, leading to them being dropped (duplicate cell id's which need to be enforced, at least as i understand it, or at least later on you can add metadata based on the source cells).

I'd suggest to add that feature as an option in integrate.

saketkc commented 1 year ago

Hi @SomeGuy3865, thanks for the request. We do not have the bandwidth to implement this in the near future. I would recommend making use of RenameCells(object, add.cell.id='XYZ') option for now.

KevinMaroney commented 1 year ago

That is what I ended up doing. Just a suggestion - I know there must be a million things higher in the priority list. Thank you.

Sincerely, Kevin Maroney

M.S. Biotechnology University of California PhD student University of Alabama at Birmingham

From: Saket Choudhary @.> Sent: Friday, April 21, 2023 2:38 PM To: satijalab/seurat @.> Cc: Kevin Maroney @.>; Mention @.> Subject: Re: [satijalab/seurat] Add new.cell.ids to integration (Issue #7168)

Hi @SomeGuy3865https://github.com/SomeGuy3865, thanks for the request. We do not have the bandwidth to implement this in the near future. I would recommend making use of RenameCells(object, add.cell.id='XYZ') option for now.

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