multiple correction on mean of TPM

Question

[Harish.Sudarsanam]

I am very new to RNAseq analysis, please correct me if i am doing something wrong. i have the TPM values of 48 samples (6 conditions each with 8 repeats) from salmon. i want to calculate the absolute value of transcripts, which is the abundance of specific RNA in the cell. Should i calculate it for each sample, or for each condition (this makes more sense to me)? But if i do the calculation for each group then i should take the average TPM values from 8 samples. how do i include the multiple testing correction while performing the calculation for average TPM? My collaborator obtained the TPM values from salmon. we had added ercc spike in RNAs during lib prep, I have the TPM for ERCC also

[ATpoint]

Cross-posted: https://support.bioconductor.org/p/9147007/