</span></span>
<span id="cb4-23"><a href="#cb4-23"></a></span>
<span id="cb4-24"><a href="#cb4-24"></a></span>
<span id="cb4-25"><a href="#cb4-25"></a><span class="co"># Sort the BAMs</span></span>
<span id="cb4-26"><a href="#cb4-26"></a><span class="ex">/map/--%</span> for i in <span class="dt">{1..384}</span><span class="kw">;</span> <span class="kw">do</span> <span class="ex">samtools</span> sort satro_flashed_s<span class="va">${i}</span>.bam -o satro_flashed_s<span class="va">${i}</span>_sorted.bam<spa