Is it possible to run palantir on batch corrected data?

[jesswhitts]

Hello,

I was just wondering if it is possible to run this on batch corrected data? SCVI corrected to be more specific. The counts themselves are not actually altered, but "X_scVI" is used as input for dimensionality reduction rather than using PCs. So could I run this and just use "X_scVI" rather than "X_pca"?

Many thanks,
Jess

[ManuSetty]

Yes - you should be able to use X_scVI as input to computing diffusion components

On Mon, May 22, 2023 at 03:50 jesswhitts ***@***.***> wrote: Hello, I was just wondering if it is possible to run this on batch corrected data? SCVI corrected to be more specific. The counts themselves are not actually altered, but "X_scVI" is used as input for dimensionality reduction rather than using PCs. So could I run this and just use "X_scVI" rather than "X_pca"? Many thanks, Jess — Reply to this email directly, view it on GitHub <#104>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAQNH3EWWTEKIXHGTUILOC3XHNAHVANCNFSM6AAAAAAYKIGIP4> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

-- Manu

[jesswhitts]

It works. Thanks! :)