I am planning to import the transcript abundances from tsv files that were calculated by kallisto using Quantseq 3' mRNA seq data.
But I don't know what is a correct argument for tximport function for Quantseq results, especially for countFromAbundance.
I assume it will be "no", but I don't know well clearly. Could you explain it to me?
Txi_gene <- tximport(path, type = "kallisto", tx2gene = Tx, txOut = FALSE, #determines whether your data represented at transcript or gene level countsFromAbundance = "no", ignoreTxVersion = TRUE)