Body: <p>I ran kraken2 on a 16s rRNA sample. I get two kinds of output, one like <a href="https://drive.google.com/file/d/1uz_Ms9KBhJehIu9shzCFmbFoYy_albnY/view?usp=sharing" rel="nofollow noreferrer">this</a>
  and the other one like <a href="https://drive.google.com/file/d/19vpgWaelvGsnWb7oET5y4SysKb6n4_GV/view?usp=sharing" rel="nofollow noreferrer">this</a>. So I have many files like this for each sample of my control and test group.</p>
  <p>How do I generate OTU table out of these outputs for phyloseq usage? Do I parse the taxa ID column of any of these and generate a frequency table of each taxa in sample to generate OTU?</p>
  <p>Any help or suggestion would be highly appreciated.</p>
  
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-07-05T15:26:31.753Z
Comments.Text: able to fix it ..issue resolved
Comments.UserDisplayName: kcm
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-07-13T13:15:52.390Z
Comments.Text: Can you share how you fixed this please? Having the same learning curve!
Comments.UserDisplayName: Reebola95
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2022-09-02T10:48:34.210Z
Comments.Text: Can you please add your fix / resolution as a separate answer (and accept it)? This is appearing in the question list as unanswered.
Comments.UserDisplayName: gringer
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2022-09-04T08:19:35.867Z
Comments.Text: okay may be i will close the question..
Comments.UserDisplayName: kcm
Tags: <microbial-genomics>
Title: kraken2 output to OTU table
ThreadText: # kraken2 output to OTU table
  
  (Asked by: username_0 on 2020-06-26)
  
  I ran kraken2 on a 16s rRNA sample. I get two kinds of output, one like [this](https://drive.google.com/file/d/1uz_Ms9KBhJehIu9shzCFmbFoYy_albnY/view?usp=sharing)
  and the other one like [this](https://drive.google.com/file/d/19vpgWaelvGsnWb7oET5y4SysKb6n4_GV/view?usp=sharing). So I have many files like this for each sample of my control and test group.
  
  How do I generate OTU table out of these outputs for phyloseq usage? Do I parse the taxa ID column of any of these and generate a frequency table of each taxa in sample to generate OTU?
  
  Any help or suggestion would be highly appreciated.
  
  **Tags:** microbial-genomics
  
  > **Comments:**
  > **username_0**: able to fix it ..issue resolved  
  > **username_1**: Can you share how you fixed this please? Having the same learning curve!  
  > **username_2**: Can you please add your fix / resolution as a separate answer (and accept it)? This is appearing in the question list as unanswered.  
  > **username_0**: okay may be i will close the question..  
  
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  ## 0 answers
  
  