SEQanswers

Go Back   SEQanswers > Applications Forums > Metagenomics



Similar Threads
Thread Thread Starter Forum Replies Last Post
Mapping species name back to taxonomy database to get higher taxonomic classification oliviaxinw Bioinformatics 2 10-27-2015 07:56 AM
Taxonomic assignment discrepancies between SILVA and GenBank databases pmb0010 Metagenomics 1 05-12-2013 09:53 AM
Eukaryote ARB Database bcayford General 1 06-07-2010 05:40 AM

Reply
 
Thread Tools
Old 04-29-2020, 11:51 PM   #1
vaishnavi kolte
Junior Member
 
Location: india

Join Date: May 2018
Posts: 1
Default How to use ARB nifH database(Zehr et. al) for taxonomic assignment

Hi
I am new to metagenomics data analysis.
Currently I am working on nifH amplicon data.
I have done quality filtering, reads merging, denoising and ASV construction using DADA2 denoising plugin in QIIME2.
Now I have to do taxonomic assignment to ASVís.

Thereís a nifH gene sequence database constructed by jzehr lab 1 which is in .arb format. My question is how to use such kind of databases which are in arb format to assign taxonomy. Is there any specific tool or method?

Has anyone used this database for taxonomic assignment?
Can anyone suggest me or guide me as to how can I do taxonomic assignment for nifH amplicon data?
vaishnavi kolte is offline   Reply With Quote
Reply

Tags
arb database, metagenomics analysis, nifh, taxonomy

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 05:02 PM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO