Difference between read count from Star and stringtie

[giacuong171]

Hello,
I'm working on getting TPM from gene count file of star and checking whether the output is correct or not. I compared the correlation between tpm values of one single exom with single transcript genes. The correlation is around 0,97 but not 1. so i dived more into it with getting read count of gene from prepDe.py of stringtie. But now there is a gene that has only 1 read from star but 600 reads from stringtie and i have no clue how that happened. Does someone might have idea for that ?

[giacuong171]

i understand that stringtie will firstly try to build a super-reads, but is it the reason why the number of reads is so different?