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                                            freedog

Unspecific strand

> Ok, I fixed the STAR run, making it compatible and I also have the alignment with HISAT2. I run Stringtie for both alignments a on/off `--fr`, for a total...

Unspecific strand

Thanks a lot~~~ @francicco

Unspecific strand

But, it seems that the XS attributes is not included in the `--outSAMattributes All` option. Have you add the `--outSAMstrandField intornMotif ` for stranded RNA-Seq? @francicco

FPKM values of 0 in single samples in single genes

Hi, I have encountered the same problem using cuffdiff. @MassaBob some expression-rich gene have FPKM value 0