axonomy.R" class="external-link"><code>R/assign_taxonomy.R</code></a></small>
      <div class="d-none name"><code>get_read_counts.Rd</code></div>
    </div>

    <div class="ref-description section level2">
    <p>Final inventory of read counts after each step from input to removal of chimeras. This function deals with if you have more than one sample. TODO optimize for one sample</p>
    </div>

    <div class="section level2">
    <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-u