I am having some issues using tximport to make a counts object from salmon outputs to feed into DESEQ2. When I try to use the tximport function on a list of files corresponding to salmon outputs the resulting occurs:
> txi <- tximport(files, type="salmon", tx2gene=tx2gene) reading in files with read_tsv 1 Error: package_version(minfo$salmon_version) >= "0.8.0" is not TRUE > txi Error: object 'txi' not found
I did, in fact, use a salmon version <= 0.8.0 (0.7.2 to be precise) as it was the most recent version available on my institution's HPC. Is there a work around or alternative package/ function to use for the lower version? Or does some additional functionality exist in salmon version 0.8.0 and higher that is required and thus I should just get that version installed and re run salmon.
Thanks in advance for any help and suggestions,