<html>
<head>
<meta content="text/html; charset=windows-1252"
http-equiv="Content-Type">
</head>
<body bgcolor="#FFFFFF" text="#000000">
<p><br>
</p>
<p>Hi David,</p>
<p>You could extract the genotypes for each variant using the API
call:<br>
</p>
<meta http-equiv="content-type" content="text/html;
charset=windows-1252">
<pre class="code sh_perl sh_sourceCode">
<span class="sh_keyword">my</span> <span class="sh_variable">$genotypes</span> <span class="sh_symbol">=</span> <span class="sh_variable">$variation</span><span class="sh_symbol">-></span><span class="sh_function">get_all_SampleGenotypes</span><span class="sh_symbol">();</span>
<span class="sh_keyword">foreach</span> <span class="sh_keyword">my</span> <span class="sh_variable">$genotype</span> <span class="sh_symbol">(</span>@<span class="sh_cbracket">{</span><span class="sh_variable">$genotypes</span><span class="sh_cbracket">}</span><span class="sh_symbol">)</span> <span class="sh_cbracket">{</span>
<span class="sh_keyword">print</span> <span class="sh_string">"Sample "</span><span class="sh_symbol">,</span> <span class="sh_variable">$genotype</span><span class="sh_symbol">-></span><span class="sh_function">sample</span><span class="sh_symbol">-></span><span class="sh_function">name</span><span class="sh_symbol">,</span> <span class="sh_string">" has genotype "</span><span class="sh_symbol">,</span> <span class="sh_variable">$genotype</span><span class="sh_symbol">-></span><span class="sh_function">genotype_string</span><span class="sh_symbol">,</span> <span class="sh_string">"\n"</span><span class="sh_symbol">;</span>
<span class="sh_cbracket">}
</span></pre>
then calculate number of times of AA + GC etc occur within the same
sample. The 1000 genomes genotypes are phased, but these variants
are too far appart for that to be relevant.<br>
<br>
Best wishes,<br>
<br>
Sarah<br>
<br>
<pre class="code sh_perl sh_sourceCode"><span class="sh_cbracket"></span></pre>
<div class="moz-cite-prefix">On 09/11/2016 15:01, david martin
wrote:<br>
</div>
<blockquote
cite="mid:20161109150154.DDDAD13444E_8233A62B@hx-mx2.ebi.ac.uk"
type="cite">
<meta http-equiv="content-type" content="text/html;
charset=windows-1252">
<p>
<meta charset="utf-8">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">Hello,</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">I have
two variants and would like to know how can i compute the
frequency and genotype of each of the alleles and then the
frequency of both combined and individually.</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">The idea
is to estimate in the 1000 genomes the frequency of each
variation and their prevalence when combined in the same
individual (with all allele possiblities)</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">For
example if varA = 80%A / 20%T and varB =40%G and 60%C</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">What is
the frequence for varA = 80% Aand varB=40%G in the population.
Same for varA = 80%A and varB = 60%C</span><br style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">So far i
have managed to get frequencies for each variation
individually (the code below is en example for one variant).</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">The two
variants are rs1333049 and rs7046863</span><br style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">I´m using
API version 86</span><br style="color: rgb(34, 34, 34);
font-family: arial, sans-serif; font-size: 12.8px; font-style:
normal; font-variant-ligatures: normal; font-variant-caps:
normal; font-weight: normal; letter-spacing: normal; orphans:
2; text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">use
strict;</span><br style="color: rgb(34, 34, 34); font-family:
arial, sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">use
warnings;</span><br style="color: rgb(34, 34, 34);
font-family: arial, sans-serif; font-size: 12.8px; font-style:
normal; font-variant-ligatures: normal; font-variant-caps:
normal; font-weight: normal; letter-spacing: normal; orphans:
2; text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">use
Bio::EnsEMBL::Registry;</span><br style="color: rgb(34, 34,
34); font-family: arial, sans-serif; font-size: 12.8px;
font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">my
$registry = 'Bio::EnsEMBL::Registry';</span><br style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">$registry->load_registry_from_</span></p>
<p><wbr style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);"><span style="color: rgb(34, 34, 34); font-family:
arial, sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">db(</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;"> -host
=> '</span><a moz-do-not-send="true"
href="http://ensembldb.ensembl.org/" rel="noreferrer"
target="_blank"
data-saferedirecturl="https://www.google.com/url?hl=es&q=http://ensembldb.ensembl.org&source=gmail&ust=1478790033013000&usg=AFQjCNGXmmBo6mZL1dmvgwVbZTuB_caJRQ"
style="color: rgb(17, 85, 204); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">ensembldb.ensembl.org</a><span style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255); display: inline
!important; float: none;">',</span><br style="color: rgb(34,
34, 34); font-family: arial, sans-serif; font-size: 12.8px;
font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;"> -user
=> 'anonymous'</span><br style="color: rgb(34, 34, 34);
font-family: arial, sans-serif; font-size: 12.8px; font-style:
normal; font-variant-ligatures: normal; font-variant-caps:
normal; font-weight: normal; letter-spacing: normal; orphans:
2; text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;"> );</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">my
$variation_adaptor = $registry->get_adaptor('human'</span><wbr
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);"><span style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255); display: inline
!important; float: none;">, 'variation', 'variation');</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">#
Retrieve 1000 genomes phase 3 data</span><br style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">$variation_adaptor->db->use_vc</span><wbr
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);"><span style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255); display: inline
!important; float: none;">f(1);</span><br style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">my
$variation = $variation_adaptor->fetch_by_n</span><wbr
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);"><span style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255); display: inline
!important; float: none;">ame('rs1333049');</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;"># get all
the alleles</span><br style="color: rgb(34, 34, 34);
font-family: arial, sans-serif; font-size: 12.8px; font-style:
normal; font-variant-ligatures: normal; font-variant-caps:
normal; font-weight: normal; letter-spacing: normal; orphans:
2; text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">my
@alleles = @{$variation->get_all_Alleles(</span><wbr
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);"><span style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255); display: inline
!important; float: none;">)};</span><br style="color: rgb(34,
34, 34); font-family: arial, sans-serif; font-size: 12.8px;
font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">foreach
my $allele(@alleles) {</span><br style="color: rgb(34, 34,
34); font-family: arial, sans-serif; font-size: 12.8px;
font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">
if($allele->population &&
$allele->population->name =~ /1000GENOMES.*YRI/){</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">
print</span><br style="color: rgb(34, 34, 34); font-family:
arial, sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">
$variation->name, "\t",</span><br style="color: rgb(34, 34,
34); font-family: arial, sans-serif; font-size: 12.8px;
font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">
$allele->allele, "\t",</span><br style="color: rgb(34, 34,
34); font-family: arial, sans-serif; font-size: 12.8px;
font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">
(defined($allele->frequency) ? $allele->frequency :
"-"), "\t",</span><br style="color: rgb(34, 34, 34);
font-family: arial, sans-serif; font-size: 12.8px; font-style:
normal; font-variant-ligatures: normal; font-variant-caps:
normal; font-weight: normal; letter-spacing: normal; orphans:
2; text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">
$allele->population->name, "\n";</span><br style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;"> }</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">}</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">my
$genotypes = $variation->get_all_Population</span><wbr
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);"><span style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255); display: inline
!important; float: none;">Genotypes();</span><br style="color:
rgb(34, 34, 34); font-family: arial, sans-serif; font-size:
12.8px; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<br style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">foreach
my $genotype (@{$genotypes}) {</span><br style="color: rgb(34,
34, 34); font-family: arial, sans-serif; font-size: 12.8px;
font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">
if($genotype->population &&
$genotype->population->name =~ /1000GENOMES.*YRI/){</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">
print "Population ", $genotype->population->name, " has
genotype ", $genotype->genotype_string, " with the
frequency ", $genotype->frequency, "\n";</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;"> }</span><br
style="color: rgb(34, 34, 34); font-family: arial, sans-serif;
font-size: 12.8px; font-style: normal; font-variant-ligatures:
normal; font-variant-caps: normal; font-weight: normal;
letter-spacing: normal; orphans: 2; text-align: start;
text-indent: 0px; text-transform: none; white-space: normal;
widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255);">
<span style="color: rgb(34, 34, 34); font-family: arial,
sans-serif; font-size: 12.8px; font-style: normal;
font-variant-ligatures: normal; font-variant-caps: normal;
font-weight: normal; letter-spacing: normal; orphans: 2;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; widows: 2; word-spacing: 0px;
-webkit-text-stroke-width: 0px; background-color: rgb(255,
255, 255); display: inline !important; float: none;">}</span></p>
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</pre>
</blockquote>
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