Batch corrected counts data

Q&A
,
1

Is there a batch-corrected version of the counts data, that combines the stranded and unstranded RNA-seq profiles? I see there is a batch-corrected form of the log(TPM+1) counts, so I assume the batch-corrected counts were also done.

2

Hi,

As of 24Q4, there isn’t a batch-corrected version of counts. The batch-correction was only done on TPM.

Thanks,
Simone

3

Hi Simone, my understanding is that batch-correction can only be done on raw counts. Can you confirm that the batch-corrected expression profiles was done on TPMs and not on counts?