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ufcg.html
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<!DOCTYPE html>
<html>
<head>
<title>UFCG - Home</title>
<meta charset="utf-8">
<meta name="viewport"
content="width=device-width, initial-scale=1, shrink-to-fit=no">
<meta http-equiv="X-UA-Compatible" content="IE=edge">
<link rel="shortcut icon" href="ufcg/image/UUCG_favicon.ico" type="image/x-icon">
<link rel="stylesheet" href="ufcg/css/style.css">
<link rel="stylesheet"
href="https://stackpath.bootstrapcdn.com/bootstrap/4.3.1/css/bootstrap.min.css"
integrity="sha384-ggOyR0iXCbMQv3Xipma34MD+dH/1fQ784/j6cY/iJTQUOhcWr7x9JvoRxT2MZw1T"
crossorigin="anonymous">
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crossorigin="anonymous"></script>
</head>
<body>
<section style="min-height:100%;padding-bottom:3rem">
<div class="container">
<div class="jumbotron" style="margin-top:3rem; margin-bottom:3rem; padding:3rem 2rem;">
<!--
<div class="row">
<div class="col-5">
<h1 class="text-right" style="font-size:4rem">UUCG</h1>
</div>
<div class="col-7">
<h5 class="text-left lead" style="margin-top:0.8rem">Reconstruction of Phylogenomic Tree using <br>
<span style="font-size:1.5rem;">U</span>p-to-date
<span style="font-size:1.5rem;">U</span>niversal
<span style="font-size:1.5rem;">C</span>ore
<span style="font-size:1.5rem;">G</span>enes
</h5>
</div>
</div>-->
<img src="ufcg/image/UFCG_banner_marv.svg" style="max-width:70%;height:auto;width:auto;margin-left:auto;margin-right:auto;display:block">
<p class="p_home p1 text-center" style="margin-top:0!important">
UFCG is a suite of database and pipeline about <strong>highly conserved</strong> and <strong>evolutionarily informative</strong> set of fungal marker genes,<br>
pre-defined with a qualified set of genome sequences from the species across the kingdom of Fungi.<br>
</p>
<div class="text-center">
<a class="btn btn-primary p_home" href="ufcg/about" role="button">
<i class="fa fa-caret-right"></i> Learn more</a>
</div></div>
<!-- <p class="p_home">The pipeline involves following functions.</p>
<ul>
<li>Extraction of pre-defined core genes from genome
assemblies</li>
<li>Multiple alignment and concatenation of the genes</li>
<li>Filtering gap-rich columns of alignments</li>
<li>Phylogenetic analysis using RAxML or FastTree</li>
<li>Calculation of Gene Support Index (GSI) which indicates
how many genes trees support each branch in the tree inferred from concatenated sequence.</li>
</ul> !-->
</div>
<div class="container p1" style="margin-bottom:5rem">
<h3 class="text-center" style="font-family:serif"><em>Contents</em></h3>
<hr>
<div class="row">
<div class="col-6">
<h3>Databases</h3>
<ul style="list-style-type:none; padding-left:0">
<li><i class="fa fa-check-square" style="width:1rem"></i><span style="font-size:1.2rem;padding-left:0.5rem">61</span> marker genes</li>
<li><i class="fa fa-database" style="width:1rem"></i><span style="font-size:1.2rem;padding-left:0.5rem">1,587</span> fungal species</li>
<li><i class="fa fa-archive" style="width:1rem"></i><span style="font-size:1.2rem;padding-left:0.5rem">10,984</span> qualified assemblies</li>
</ul>
<a class="btn btn-outline-primary" href="ufcg/genes" role="button" style="display:inline-block;margin-right:1rem">
<i class="fa fa-check-square"></i> Gene </a>
<a class="btn btn-outline-primary" href="ufcg/species" role="button" style="display:inline-block;margin-right:1rem">
<i class="fa fa-database"></i> Species </a>
</div>
<div class="col-6">
<h3>Pipeline</h3>
<ul style="list-style-type:none; padding-left:0">
<li><i class="fa fa-code" style="width:1rem"></i><span style="font-size:1.2rem;padding-left:0.5rem">Java</span> application</li>
<li><i class="fa fa-desktop" style="width:1rem"></i><span style="font-size:1.2rem;padding-left:0.5rem">Linux / macOS</span> support</li>
<li><i class="fa fa-book" style="width:1rem"></i><span style="font-size:1.2rem;padding-left:0.5rem">User guide</span></li>
</ul>
<a class="btn btn-outline-primary" href="ufcg/manual" role="button" style="display:inline-block; margin-right:1rem">
<i class="fa fa-check-square-o"></i> Manual</a>
<a class="btn btn-outline-primary" href="ufcg/tutorial" role="button" style="display:inline-block; margin-right:1rem">
<i class="fa fa-play-circle-o"></i> Tutorial</a>
<a class="btn btn-outline-primary" href="ufcg/download" role="button" style="display:inline-block">
<i class="fa fa-download"></i> Download</a>
</div>
</div>
</div>
<div class="container p1" style="margin-bottom:5rem">
</div>
</section>
<nav class="navbar navbar-expand-md navbar-dark fixed-top bg-dark">
<div class="container">
<div class="navbar-header">
<a class="navbar-brand" href="ufcg"><img src="ufcg/image/fmarv_icon.png" width="30"> UFCG</a>
</div>
<button class="navbar-toggler" type="button" data-toggle="collapse"
data-target="#navbarsExampleDefault"
aria-controls="navbarsExampleDefault" aria-expanded="false"
aria-label="Toggle navigation">
<span class="navbar-toggler-icon"></span>
</button>
<div class="collapse navbar-collapse" id="navbarsExampleDefault">
<ul class="navbar-nav mr-auto">
<li class="nav-item"><a class="nav-link" href="ufcg">Home</a></li>
<li class="nav-item"><a class="nav-link" href="ufcg/about">About</a></li>
<li class="nav-item dropdown"><a
class="nav-link dropdown-toggle" href="ufcg/database" id="dropdown01"
data-toggle="dropdown" aria-haspopup="true" aria-expanded="false">Database</a>
<div class="dropdown-menu" aria-labelledby="dropdown01">
<a class="dropdown-item" href="ufcg/genes">Genes</a>
<a class="dropdown-item" href="ufcg/species">Species</a>
</div>
</li>
<li class="nav-item dropdown"><a
class="nav-link dropdown-toggle" href="ufcg/pipeline" id="dropdown01"
data-toggle="dropdown" aria-haspopup="true" aria-expanded="false">Pipeline</a>
<div class="dropdown-menu" aria-labelledby="dropdown01">
<a class="dropdown-item" href="ufcg/manual">Manual</a>
<a class="dropdown-item" href="ufcg/tutorial">Tutorial</a>
<a class="dropdown-item" href="ufcg/download">Download</a>
</div>
</li>
<li class="nav-item dropdown"><a
class="nav-link dropdown-toggle" href="ufcg/links" id="dropdown01"
data-toggle="dropdown" aria-haspopup="true" aria-expanded="false">Links</a>
<div class="dropdown-menu" aria-labelledby="dropdown01">
<a class="dropdown-item" href="https://github.com/endixk/ufcg" target="_blank" rel="noopener noreferrer"><i class="fa fa-github"></i> GitHub</a>
<a class="dropdown-item" href="https://steineggerlab.com" target="_blank" rel="noopener noreferrer"><i class="fa fa-flask"></i> Steinegger Lab</a>
<a class="dropdown-item" href="https://creativecommons.org/licenses/by-sa/4.0/" target="_blank" rel="noopener noreferrer"><i class="fa fa-creative-commons"></i> License</a>
</div>
</li>
<li class="nav-item"><a class="nav-link" href="ufcg/citation">Cite us</a></li>
</ul>
</div>
</div>
</nav>
<script>
$(document).ready(function() {
var pname = window.location.pathname;
var phead = 'ufcg';
if(pname.split('/').length > 2){
phead = phead + '/' + pname.split('/')[2];
}
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}
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phead = 'ufcg/pipeline'
}
$('.navbar-nav > li > a[href="'+ phead +'"]').parent().addClass('active');
})
</script>
</body>
</html>