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Old 01-06-2015, 04:11 PM   #1
khoojj
Junior Member
 
Location: Malaysia

Join Date: Aug 2014
Posts: 2
Question OTU from Qiime biom file not showing up in Megan tree?

Hi, I have something I'm not quite sure what's happening so will appreciate if someone here will be able to help. I have produced a biom file, produced the taxa summary, and generated bar plots using Qiime. I then imported the biom file into Megan for visualization.

What I found is that the bar plot shows many Actinobacteria reads identified to genus level (Screenshot 1), which is also found in the L6 taxa summary file. However, after imported into Megan, the Actinobacteria reads were only assigned to the phylum level (Screenshot 2). It cannot be uncollapsed anymore. I did not adjust any parameters while importing the biom file into Megan. I can see other genus level reads (ie Staphylococcus) in the tree in Megan.

I don't understand why the Actinobacter OTUs were not assigned to genus level in Megan. Can someone shed some light here. Thank you in advance!
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