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<p class="MsoNormal">Hi –<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Please see attached GRCh38 annotated VCF file.<o:p></o:p></p>
<p class="MsoNormal">These are a few lines from a GRCh37 to GRCH38 lifted over 1000 Genomes VCF.
<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><b>Concerns:<o:p></o:p></b></p>
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<li class="MsoListParagraph" style="margin-left:0in;mso-list:l0 level1 lfo1">I’m wondering why in this case there are still missing data points.<o:p></o:p></li><li class="MsoListParagraph" style="margin-left:0in;mso-list:l0 level1 lfo1">Also, my lifted over vcf had a column with the previous coordinates, but that is left out in the annotated VCF file,<o:p></o:p></li></ul>
<p class="MsoListParagraph">What can I do to keep that column?<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Best,<o:p></o:p></p>
<p class="MsoNormal">Margaret<o:p></o:p></p>
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