I got sequences from 454 and I was told that the dNTPs went through the machine in a GACT order (Majorbio company did this). However, when I was to denoise these sequences with shhh.flows, I found that I can not choose the order=A, B, or I.
Is there any methods to denoise it or can I jump over this step ?
Waiting for help, Thanks!
Ugh, that’s a pain. We could add an option in a future release to use a custom flow order. In the meantime, you should look at the 454 SOP on how to use the quality score information to denoise the data.
Pat