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=== flanking sequence filter ===
=== flanking sequence filter ===
We recommend excluding sites with >0.1% flanking 10-mer frequency among candidate sites. samtools calmd -br performs this base quality re-calibration.
We recommend excluding sites with >0.1% flanking 10-mer frequency among candidate sites. samtools calmd -br performs this base quality re-calibration.
== Citation ==
Li Y, Sidore C, Kang HM, Boehnke M, Abecasis GR. Low-coverage sequencing: Implications for design of complex trait association studies. <em>Genome Res.</em> 2011 Jun;21(6):940-51. <br>
== Questions and Comments? ==
== Questions and Comments? ==
Email [mailto:yunli@med.unc.edu Yun Li].
Email [mailto:yunli@med.unc.edu Yun Li].
