Question: Best reference database for 16S soil datasets?
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gravatar for Lina F
3.6 years ago by
Lina F190
Boston, MA
Lina F190 wrote:

Hi all,

I came across some interesting 16S datasets from soil. Can anyone recommend a good reference database? RDP vs Silva? The Greengenes webpage highlights the update from May 2013... so maybe a bit outdated.

Thanks for your suggestions!

soil 16s reference metagenomics • 1.2k views
ADD COMMENTlink modified 3.6 years ago by Denise CS5.1k • written 3.6 years ago by Lina F190
1
gravatar for 5heikki
3.6 years ago by
5heikki9.0k
Finland
5heikki9.0k wrote:

RDP and Silva are both fine. Silva is more restrictive in terms of its licence but it's fine for academic use..

ADD COMMENTlink written 3.6 years ago by 5heikki9.0k

Great, I appreciate the input!!

ADD REPLYlink written 3.6 years ago by Lina F190
0
gravatar for Denise CS
3.6 years ago by
Denise CS5.1k
UK, Hinxton, EMBL-EBI
Denise CS5.1k wrote:

May be worth throwing the EMBL-EBI metagenomics in the comparison mix. No issues with license.

ADD COMMENTlink written 3.6 years ago by Denise CS5.1k

Thanks for the link! However, these look like metagenomics samples, not necessarily reference databases for use in annotation taxonomies, or am I missing something?

ADD REPLYlink written 3.6 years ago by Lina F190
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