a-reference-genome-and-associated-steps.html"><a href="alignment-of-sequence-data-to-a-reference-genome-and-associated-steps.html#samtools-subcommands"><i class="fa fa-check"></i><b>19.4.1</b> <code>samtools</code> subcommands</a></li>
</ul></li>
<li class="chapter" data-level="19.5" data-path="alignment-of-sequence-data-to-a-reference-genome-and-associated-steps.html"><a href="alignment-of-sequence-data-to-a-reference-genome-and-associated-steps.html#boneyard-below-here"><i class="fa fa-check"></i><b>19.5<