an class="r-pr">#&gt;</span> <span style="color: #00BB00;">  Checking coding of SNPs</span></span>
<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #00BB00;">    SNP data scored NA, 0, 1 or 2 confirmed</span></span>
<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #00BB00;">  Checking locus metrics and flags</span></span>
<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #00BB00;">  Recalculating locus metrics</span></span>
<span c