Dear all, I have a dataframe consisting of tpm count generated from another group using RSEM.  However, this only comes with tpm counts only.
My goal is to use tximport to convert to this to a count-matrix to use with something like voom-limmar, however the the tutorial I can find so far gives a example such as this,

tximport(files, type = "salmon", tx2gene = tx2gene, countsFromAbundance = "lengthScaledTPM")

where the input is a bunch of tsv files and we must define the type.  My question is, instead of "files" can I just provide a dataframe with something that looks like this with tpm counts?

...

so here each column is a sample and each gene is just TPM counts.

thanks!

A.

You wouldn't use tximport to convert a matrix of TPM counts into CPM. The question of using TPMs for differential expression with limma has been covered before here:

Differential expression analysis starting from TPM data

tximport requires the original files, as it uses more information than the TPM alone. See the tximport citation for more details.