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<p class="MsoNormal">Hi all,<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><span lang="EN-US">I am trying to remove from my dataset those loci in HWE. I have measured it both per population: hwe.pop<-(lapply(seppop(x), hw.test) and per locus hwe.loc<-hw.test(x), B=1000).<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US">Now I would like to define a threshold (0.05) for the Pr(chi^2>), removing all those loci with a derived P-values above this threshold. How could I perform this analysis? Do you have any suggestion?<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US">I am wondering if this is the best way to filter my dataset according to the HWE. Any advise would be more than welcome.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US">Best regards,<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US">Carlo<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="color:#1F497D"><o:p> </o:p></span></p>
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<p class="MsoNormal"><b><span style="font-size:10.0pt;font-family:"Segoe UI","sans-serif"">Da:</span></b><span style="font-size:10.0pt;font-family:"Segoe UI","sans-serif""> Carlo Pecoraro
<br>
<b>Inviato:</b> lunedì 17 agosto 2015 16:14<br>
<b>A:</b> 'adegenet-forum@lists.r-forge.r-project.org'<br>
<b>Oggetto:</b> HWE<o:p></o:p></span></p>
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<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Hi all,<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><span lang="EN-US">I am trying to remove from my dataset those loci in HWE. I have measured it both per population: hwe.pop<-(lapply(seppop(x), hw.test) and per locus hwe.loc<-hw.test(x), B=1000).<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US">Now I would like to define a threshold (0.05) for the Pr(chi^2>), removing all those loci with a derived P-values above this threshold. How could I perform this analysis? Do you have any suggestion?<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US">I am wondering if this is the best way to filter my dataset according to the HWE. Any advise would be more than welcome.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US">Best regards,<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US">Carlo<o:p></o:p></span></p>
<p class="MsoNormal" style="background:white"><b><span lang="EN-US" style="font-size:12.0pt;font-family:"Cambria","serif";color:#1F497D;background:
white">--<o:p></o:p></span></b></p>
<p class="MsoNormal" style="background:white"><b><span lang="EN-US" style="font-size:12.0pt;font-family:"Cambria","serif";color:#1F497D;background:
white"><o:p> </o:p></span></b></p>
<p class="MsoNormal" style="background:white"><b><span lang="EN-US" style="font-size:12.0pt;font-family:"Cambria","serif";color:#1F497D;background:
white">Carlo Pecoraro, PhD Candidate</span></b><span lang="EN-US" style="font-size:13.5pt;font-family:"Segoe UI","sans-serif";color:black"><o:p></o:p></span></p>
<p class="MsoNormal" style="background:white"><b><span lang="EN-US" style="font-size:12.0pt;font-family:"Cambria","serif";color:#1F497D;background:
white"><br>
</span></b><i><span lang="EN-US" style="font-size:10.0pt;color:#1F497D;
background:white">Laboratory of Genetics & Genomics of Marine Resources and Environment (GenoDREAM)<br>
Dept.</span></i><i><span lang="EN-US" style="font-size:10.0pt;color:#1F497D"> <span style="background:white">Biological, Geological & Environmental Sciences (BiGeA)<br>
University of Bologna<br>
Via S. Alberto 163, 48123 Ravenna (Italy)<o:p></o:p></span></span></i></p>
<p class="MsoNormal" style="background:white"><i><span lang="EN-US" style="font-size:10.0pt;color:#1F497D;background:white"><o:p> </o:p></span></i></p>
<p class="MsoNormal" style="background:white"><i><span lang="EN-US" style="font-size:10.0pt;color:#1F497D">IRD (Institut de Recherche pour le Développement)<br>
UMR 212 EME (Ecosytèmes Marins Exploités)<br>
BP 570<br>
Victoria, Mahé<br>
Seychelles<o:p></o:p></span></i></p>
<p class="MsoNormal" style="background:white"><i><span lang="EN-US" style="font-size:10.0pt;color:#1F497D;background:white"><br>
</span></i><i><span style="font-size:10.0pt;color:#1F497D;background:white">Ph: +39 3337603101</span></i><i><span style="font-size:10.0pt;color:#1F497D"><o:p></o:p></span></i></p>
<p class="MsoNormal" style="background:white"><i><span style="font-size:10.0pt;
color:#1F497D;background:white">skype contact: carlo_pecoraro</span></i><i><span style="font-size:10.0pt;color:#1F497D"><o:p></o:p></span></i></p>
<p class="MsoNormal"><o:p> </o:p></p>
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