I ran the new tuxedo pipeline for a reference based transcriptome analysis on HumanGenome19. After running HISAT2, I executed StringTie with -A option and got the abundance file and it looks like the following
Gene ID Gene Name Reference Strand Start End Coverage FPKM TPM
ENSG00000223972 DDX11L1 1 + 11869 14412 0.261954 0.056163 0.152539
ENSG00000227232 WASH7P 1 - 14363 29806 23.156389 5.585505 15.170202
ENSG00000243485 MIR1302-10 1 + 29554 31109 0.093882 0.048981 0.133031
Now what I would like to know is how is the "Coverage" value in 7th column calculated and in what units (or is it in percentage) ??
In the manual page, it shows "cov: The average per-base coverage for the transcript or exon" but still the calculation is not clear to me.