workflow starting with 16S sequences obtained with sanger sequencing

[FranciscoC]

Dear PICRUSt community,

I´m wondering if it would be possible to use PICURSt to predict the metagenome  of isolates starting with 16S sequences obtained with traditional sanger sequencing.

What would be the workflow for something like this?

Cheers,

FranciscoC

[Morgan Langille]

I can't think of any reason why you could not use Sanger reads with closed reference OTU picking and then PICRUSt. You would simply format the sequences into a fasta file with QIIME fasta headers as described here: http://picrust.github.io/picrust/tutorials/otu_picking.html#picking-closed-reference-otus-with-qiime

Then continue with the normal PICRUSt workflow. 

--------------------------------------------

Dr. Morgan Langille

Assistant Professor & Canada Research Chair Candidate

Department of Pharmacology, Dalhousie University

http://morganlangille.com

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[Francisco Coelho]

Thank you very much Morgan!

Cheers,

Francisco

--

Francisco J.R.C. Coelho

http://www.cesam.ua.pt/franciscoJRCcoelho

pt.linkedin.com/in/franciscojrccoelho/    

[Leandro de Mattos]

Dear Morgan Langille,
I predicted functional profile with picrust from sanger 16S sequencing data. But I'm with doubt If have use normalization copy number step.
What Do you think or your opnion?
Thanks for your attention,
Leandro