16s rRNA gene diversity analysis
I have isolated metagenome sequences from 3 sites amplified and sequenced 16s rRNA gene by SANGER sequencing. I want to access the diversity and compare between sites. Do I need to generate OTUs individually or at once and use groups?
Cross reference: https://www.researchgate.net/post/How_to_compare_microbial_diversity_using_MOTHUR
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Arindam Ghosh
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https://www.researchgate.net/post/How_to_compare_microbial_diversity_using_MOTHUR
What do you mean by groups? In general, you want to call OTUs with all your samples together.
This is sanger sequencing (just noticed that bit). How many sequences do you have @ag1805x?