<html dir="ltr">
<head>
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1">
<style id="owaParaStyle" type="text/css"></style>
</head>
<body ocsi="0" fpstyle="1" bgcolor="#FFFFFF">
<div style="direction: ltr;font-family: Tahoma;color: #000000;font-size: 10pt;"><br>
<div>Hi there, <br>
<div class="BodyFragment"><font size="2"><span style="font-size:10pt;">
<div class="PlainText">individuals are plotted according to their order in the genlight object (individuals' indices are indicated on the y-axis.
<br>
Cheers<br>
Thibaut<br>
<br>
</div>
</span></font></div>
</div>
<div style="font-family: Times New Roman; color: #000000; font-size: 16px">
<hr tabindex="-1">
<div style="direction: ltr;" id="divRpF196075"><font face="Tahoma" size="2" color="#000000"><b>From:</b> adegenet-forum-bounces@lists.r-forge.r-project.org [adegenet-forum-bounces@lists.r-forge.r-project.org] on behalf of Yan Hou [yan.hou@nhm.uio.no]<br>
<b>Sent:</b> 12 January 2015 21:26<br>
<b>To:</b> adegenet-forum@lists.r-forge.r-project.org<br>
<b>Cc:</b> Yan Hou<br>
<b>Subject:</b> [adegenet-forum] glPlot: which sample is used as the reference?<br>
</font><br>
</div>
<div></div>
<div>Hi,<br>
I managed to use glPlot( <span style="" lang="EN-GB">SNPs,posi="topleft"</span> <style>
<!--
@font-face
{font-family:\5B8B \4F53 }
@font-face
{font-family:\5B8B \4F53 }
@font-face
{font-family:Calibri}
p.MsoNormal, li.MsoNormal, div.MsoNormal
{margin-top:0cm;
margin-right:0cm;
margin-bottom:10.0pt;
margin-left:0cm;
line-height:115%;
font-size:11.0pt;
font-family:"Calibri","sans-serif"}
.MsoChpDefault
{font-family:"Calibri","sans-serif"}
.MsoPapDefault
{margin-bottom:10.0pt;
line-height:115%}
@page WordSection1
{margin:72.0pt 90.0pt 72.0pt 90.0pt}
-->
BODY {direction: ltr;font-family: Tahoma;color: #000000;font-size: 10pt;}P {margin-top:0;margin-bottom:0;}BODY {scrollbar-base-color:undefined;scrollbar-highlight-color:undefined;scrollbar-darkshadow-color:undefined;scrollbar-track-color:undefined;scrollbar-arrow-color:undefined}BODY {scrollbar-base-color:undefined;scrollbar-highlight-color:undefined;scrollbar-darkshadow-color:undefined;scrollbar-track-color:undefined;scrollbar-arrow-color:undefined}BODY {scrollbar-base-color:undefined;scrollbar-highlight-color:undefined;scrollbar-darkshadow-color:undefined;scrollbar-track-color:undefined;scrollbar-arrow-color:undefined}BODY {scrollbar-base-color:undefined;scrollbar-highlight-color:undefined;scrollbar-darkshadow-color:undefined;scrollbar-track-color:undefined;scrollbar-arrow-color:undefined}BODY {scrollbar-base-color:undefined;scrollbar-highlight-color:undefined;scrollbar-darkshadow-color:undefined;scrollbar-track-color:undefined;scrollbar-arrow-color:undefined}</style>)
to present the position of SNPs in my concatenated and aligned RAD-seq data matrix. When looking at the figure, I wonder which sample was used as the reference? The first sample in the input file or the sample with most complete sequence data? My first sample
has a large number of missing data, so I wonder?<br>
<br>
Cheers,<br>
<br>
Yan<br>
</div>
</div>
</div>
</body>
</html>