Question: MiSeq - reference database for ITS
gravatar for User 4014
5.2 years ago by
User 401440
User 401440 wrote:

HI Folks,


I am a beginner learning to use MOTHUR for analysis of my fungal ITS1/2 datasets. I followed MOTHUR MiSeq SOP which relies on bacterial 16S until the step align.seqs. I understand that I need another reference database in this step, may I ask which reference database? And which command should I use in case I can't use align.seqs? I appreciate if you could recommend a step-by-step tutorial regarding Mothur and ITS analysis that I can learn from.


Thank you in advance and have a good day!




amplicon sequencing its mothur • 2.6k views
ADD COMMENTlink modified 5.2 years ago • written 5.2 years ago by User 401440

Have you looked at this?

ADD REPLYlink written 5.2 years ago by h.mon30k

HI h.mon,

Thanks for the link. So I guess if I use UNITE for ITS2 I can just use the command classify.seqs?

ADD REPLYlink modified 9 months ago by RamRS28k • written 5.2 years ago by User 401440
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