STAR index generation option --sjdbOverhang for paired-end ?

Question

[XBria]

Hi,

To generate indices for paired-end samples for example with 75 forward and 75 reverse shall I write 75-1 in the option --sjdbOverhang or 150-1 ?

Answer 1

[Hussain Ather]

74.

The answer is explained here.

[mforde84]

Yes, that's correct. It's just read length - 1.