mothur

ITS data from Ion torrant PGM

Dear all,
I would like to ask if any mothur workflow /SOPs suitable for ITS data generated with Ion Torrent PGM

Best,
Marwa

Hi Marwa,

Sorry, we don’t have anything and I don’t know of anything. I thought the IonTorrent reads would be much too short to sequence ITS data. Would it perhaps be better to use 2x250 MiSeq or PacBio sequencing?

pat

Thanks for your reply. Yes, Ion torrent gives short reads that is why I did sequence ITS1 region only and not the entire region.
So, I could not use mothur pipeline to analyze my data? I already did analyze my data using DADA2 pipeline and want to use other pipelines as a comparison study.

Best,
Marwa