Silva 132 release database

[Lavandel]

Hello NINJA-OPS developers,

Thank you for creating NINJA. It is very quick indeed!

I have a question about creating the database. SILVA just release a new database 132 and I wanted to use it with NINJA. Does the instruction for making SILVA database compatible with NINJA similar to that provided for greengenes? I also do not fully understand the creation of .taxonomy file. Is it automatically pass when using NINJA to pick OTU if the .taxonomy file is presented? or do I have to tell NINJA to take it?

Thank you :),
Laven

[GabeAl]

Hi Laven, Yes, the procedure should be the the same. The taxonomy file simply needs to be in the same format as the GreenGenes taxonomy file (listing the accession followed by the semicolon-delimited taxonomy). Sometimes SILVA releases "QIIME-compatible versions" which are plug-and-play compatible with NINJA-OPS. The standard release I think requires a little massaging to get the format correct (such as 7-level taxonomy, etc). The release you probably want to use is here: https://www.arb-silva.de/fileadmin/silva_databases/qiime/Silva_132_release.zip You'll want the SSU/16S database in there, specifically. Hope this helps! Gabe

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On Tue, May 1, 2018 at 3:40 PM Lavandel ***@***.***> wrote: Hello NINJA-OPS developers, Thank you for creating NINJA. It is very quick indeed! I have a question about creating the database. SILVA just release a new database 132 and I wanted to use it with NINJA. Does the instruction for making SILVA database compatible with NINJA similar to that provided for greengenes? I also do not fully understand the creation of .taxonomy file. Is it automatically pass when using NINJA to pick OTU if the .taxonomy file is presented? or do I have to tell NINJA to take it? Thank you :), Laven — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#19>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AHrXBoxdTBV7dW-LwLNilnEIfEQ6tUDEks5tuMhXgaJpZM4TueHU> .

[Lavandel]

Hi Gabe,

Thank you very much!

Laven