 of the base modification statuses will be used in calculating the entropy values.</p>
<p>For example if you want to calculate m6A entropy in DRACH motifs:</p>
<pre><code class="language-bash">${modkit} entropy ${bam} \
  -o ${output} \
  --regions ${regions} \
  --ref ${ref} \
  --motif DRACH 2 \
  --threads 32 \
  --log-filepath modkit_entropy.log \
</code></pre>
<p>When performing transcriptome analysis, it's recommended to make a regions BED file of all of the transcripts so that you can rank which tran