Please suggest how to input stringtie reads data for deseq2 analysis

In the vignette for DESeq2, there is a recommendation to use the tximport package, (with a helpful link!). If you follow the link, you will get the information you desire.

If you plan to use any Bioconductor package, you should thoroughly read all associated vignettes, which are meant to get you familiarized with the package.