text: user7427: I have hundreds of GBs metagenomic 16S rRNA gene sequence data. I want to do microbiome composition profiling (with relative abundance) from the data. Also after that, I will do functional profiling (gene and metabolome level). 
  Can you please suggest me the best software(s) for these two tasks?
  Thank You
  
  user1140: I tried dada2 and is not bad (if you know R).
  QIIME2 is also an option.
  Many other are available, the choice might also depend on your sample and your exact question.
  For functional profiling you may try picrust2
  
original_text: 7427: <p>I have hundreds of GBs metagenomic 16S rRNA gene sequence data. I want to do <strong>microbiome composition profiling</strong> (with relative abundance) from the data. Also after that, I will do functional profiling (<strong>gene and metabolome level</strong>). </p>
  
  <p>Can you please suggest me the <strong>best software(s)</strong> for these two tasks?</p>
  
  <p>Thank You</p>
   1140: <p>I tried <a href="https://benjjneb.github.io/dada2/" rel="nofollow noreferrer">dada2</a> and is not bad (if you know R).</p>
  
  <p><a href="https://qiime2.org/" rel="nofollow noreferrer">QIIME2</a> is also an option.
  Many other are available, the choice might also depend on your sample and your exact question.</p>
  
  <p>For functional profiling you may try <a href="https://github.com/picrust/picrust2/wiki" rel="nofollow noreferrer">picrust2</a></p>
  