Question for batch correction

[jyeoneeee]

❓ Questions and Help

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Hi, I have a question for using immunarch for TCR analysis with 2 (or more) different bulk-seq results.
Is it possible to compare TCR diversity from different experiment sets and is there any way for batch correction? or is it impossible.

Thanks

[vadimnazarov]

Hi @jyeoneeee

Thank you for opening the issue. You could put all data in your_data$data and update the metadata table in your_data$meta to reflect changes. As a possible way to make sure the data is "normalized", you could use repSample to downsample the data to the smallest dataset volume. I don't think there are other possible ways to do a batch correction. Did you use different technologies to get the data?

I'm open to scheduling a short call to discuss this issue over Zoom if this accelerates things.