Adding +1 to exon end.

[LucoLab]

From a gtf where coordinate is chr3 52554724 52554879 for an exon.

Looking into _genes.ent output then for this same exon :
chr3 52554724 52554880

It's always adding 1 to the end coordinate.

Weird, no ?

[r78v10a07]

Hi, The GTF format are 1-base, it mean that the positions start at 1 but BAM files are 0-base.
TPMCalculator move the feature coordinates to 0-base and print then in 0-base.

It is weird.
The output coordinates should be:
chr3 52554723 52554878

Can you share the GTF and the BAM file with me, please?