Hello everyone,
I Have some 18S amplicon sequenced data from marine. I Have ran DADA2 For denoising after that I have done taxonomy classification using both silva-138-99-nb-classifier.qza and pr2-classifier.qza. It gave me two different taxa bar plot for each taxonomy database.
Here are two plots
this is using silva
this is using PR2
Why there are so much difference in the assigned taxonomy ?
Please help on this.
Thank you
Hi @Adyasha_Panda,
Can you provide more details? For example, what organisms are you interested in studying? I assume you are interested in 18S rRNA gene sequences / eukaryotes given that you're using SILVA and PR2? Which versions are you using?
Also, it is not uncommon to see differing taxonomic assignments between reference databases. This has been discussed several times on the forum. Here are at least two examples:
P.S. - We'll be adding the ability to automatically fetch and import the PR2 database into RESCRIPt soon.
