diff options
Diffstat (limited to 'wqflask/wqflask/templates/new_index_page.html')
| -rw-r--r-- | wqflask/wqflask/templates/new_index_page.html | 423 |
1 files changed, 0 insertions, 423 deletions
diff --git a/wqflask/wqflask/templates/new_index_page.html b/wqflask/wqflask/templates/new_index_page.html deleted file mode 100644 index 695129a9..00000000 --- a/wqflask/wqflask/templates/new_index_page.html +++ /dev/null @@ -1,423 +0,0 @@ -<!DOCTYPE html> -<html lang="en"> -<head> - <meta charset="utf-8"> - <title>GeneNetwork</title> - <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <meta name="description" content=""> - <meta name="author" content=""> - <link REL="stylesheet" TYPE="text/css" href="/static/packages/bootstrap/css/bootstrap.min.css" /> - <link REL="stylesheet" TYPE="text/css" href="/static/packages/bootstrap/css/bootstrap-responsive.min.css" /> - <link REL="stylesheet" TYPE="text/css" href="/static/packages/bootstrap/css/docs.css" /> - - <!-- HTML5 shim, for IE6-8 support of HTML5 elements --> - <!--[if lt IE 9]> - <script src="http://html5shim.googlecode.com/svn/trunk/html5.js"></script> - <![endif]--> - - -</head> - -<body data-spy="scroll" data-target=".bs-docs-sidebar"> - <!-- Navbar - ================================================== --> - <div class="navbar navbar-inverse navbar-fixed-top"> - <div class="navbar-inner"> - <div class="container"> - <button type="button" class="btn btn-navbar" data-toggle="collapse" data-target=".nav-collapse"> - <span class="icon-bar"></span> - <span class="icon-bar"></span> - <span class="icon-bar"></span> - </button> - <a class="brand" href="/">GeneNetwork</a> - <div class="nav-collapse collapse"> - <ul class="nav"> - <li class="active"> - <a href="/">Home</a> - </li> - <li class="dropdown"> - <a id="drop1" href="#" role="button" class="dropdown-toggle" data-toggle="dropdown"> - Search <b class="caret"></b> - </a> - <ul class="dropdown-menu" role="menu" aria-labelledby="drop1"> - <li><a tabindex="-1" href="/webqtl/main.py?FormID=tissueCorrelation">Tissue Corrleation</a></li> - <li><a tabindex="-1" href="/webqtl/main.py?FormID=snpBrowser">SNP Browser</a></li> - <li class="divider"></li> - <li><a tabindex="-1" href="/webqtl/main.py?FormID=geneWiki">Gene Wiki</a></li> - </ul> - </li> - <li class=""> - <a href="#">Help</a> - </li> - <li class=""> - <a href="/whats_new">News</a> - </li> - <li class=""> - <a href="./reference.html">References</a> - </li> - <li class=""> - <a href="./policies">Policies</a> - </li> - <li class=""> - <a href="./links">Links</a> - </li> - </ul> - </div> - </div> - </div> - </div> - - <header class="jumbotron subhead" id="overview"> - <div class="container"> - <h1>GeneNetwork</h1> - <p class="lead">Open source bioinformatics for systems genetics<br /> - Brought to you by the University of Tennessee</p> - </div> - </header> - - - <div class="container"> - <div class="row"> - <div class="span3 bs-docs-sidebar"> - <ul class="nav nav-list bs-docs-sidenav"> - <li><a href="#search"><i class="icon-chevron-right"></i> Search</a></li> - <li><a href="#getting-started"><i class="icon-chevron-right"></i> Getting started</a></li> - <li><a href="#advanced"><i class="icon-chevron-right"></i> Advanced commands</a></li> - <li><a href="#tour-info"><i class="icon-chevron-right"></i> Tour and more info</a></li> - <li><a href="#websites"><i class="icon-chevron-right"></i> Affiliates and mirrors</a></li> - </ul> - </div> - - <div class="span9"> - <section id="search"> - <div class="page-header"> - <h1>Select and search</h1> - </div> - <form method="get" action="/search" name="SEARCHFORM"> - <fieldset> - <!--<legend>Select and Search</legend>--> - <label for="species">Species:</label> - <select name="species" id="species" class="input-xlarge ds_selector"> - </select> - - <div class="input-append"> - <label for="group">Group: </label> - <select name="group" id="group" class="input-xlarge ds_selector"></select> - <!--<i class="icon-question-sign"></i>--> - <input type="button" class="btn" value="Info" id="group_info" /> - </div> - - - <label for="tissue">Type:</label> - <select name="type" id="type" class="input-xlarge ds_selector"></select> - - <div class="input-append"> - <label for="dataset">Dataset:</label> - <select name="dataset" id="dataset" class="input-xlarge"></select> - <input type="button" class="btn" value="Info" id="dataset_info" /> - </div> - <!-- USER HELP --> - - - <!--<p >Databases marked with <b>**</b>--> - <!-- suffix are not public yet.<br>--> - <!-- Access requires <a href="/account.html" target=--> - <!-- "_blank" class="fs14">user login</a>.</p>--> - - <!-- GET ANY SEARCH --> - - <label for="tfor">Search:</label> - - <input class="search-query input-xlarge" - id="tfor" name="search_terms" - type="text" maxlength="500"> - - <!-- GET ANY HELP --> - - <p>Enter terms, genes, ID numbers in the - <b>Search</b> field<br> - Use <b>*</b> or <b>?</b> wildcards (Cyp*a?, - synap*)<br> - Use <b>quotes</b> for terms such as <i>"tyrosine - kinase"</i></p> - - <!-- SEARCH, MAKE DEFAULT, ADVANCED SEARCH --> - - - <input id="btsearch" type="submit" - class="btn btn-primary" value="Search"> - - <input type="button" class="btn" value="Make Default" - id="make_default"> - - <input type="button" class= - "btn" value="Advanced Search" onclick= - "javascript:window.open('/index3.html', '_self');"> - - <input type="hidden" name="FormID" value="searchResult"> <input type= - "hidden" name="RISet" value="BXD"> - </fieldset> - </form> - </section> - - <section id="getting-started"> - <div class="page-header"> - <h1>Getting started</h1> - </div> - - <ol style="font-size:12px;font-family:verdana;color:black"> - <li>Select <b>Species</b> (or All)</li> - - <li>Select <b>Group</b> (a specific sample)</li> - - <li>Select <b>Type</b> of data: - - <ul> - <li>Phenotype (traits)</li> - - <li>Genotype (markers)</li> - - <li>Expression (mRNAs)</li> - </ul> - </li> - - <li>Select a <b>Database</b></li> - - <li>Enter terms in the search field: words, - genes, ID numbers, probes, advanced search commands</li> - - <li>Click the <b>Search</b> button</li> - - <li>Optional: Use the <b>Make Default</b> button to save your preferences</li> - </ol> - - <h3>User Guide</h3> - <h5>Read the - <a href="http://www.genenetwork.org/index4.html" target="_blank"> - user guide</a>.</h5> - - </section> - - - <section id="advanced"> - <div class="page-header"> - <h1>Advanced commands</h1> - </div> - - <p>GeneNetwork supports a variety of advanced searches.</p> - - <p>To try them out copy these examples into the search field:</p> - - <ul> - <li><b>POSITION=(chr1 25 30)</b> finds genes, markers, or transcripts on - chromosome 1 between 25 and 30 Mb.</li> - - <li><b>MEAN=(15 16) LRS=(23 46)</b> in the <b>Combined</b> field finds - highly expressed genes (15 to 16 log2 units) AND with peak <a href= - "http://www.genenetwork.org/glossary.html#L" target="_blank">LRS</a> - linkage between 23 and 46.</li> - - <li><b>RIF=mitochondrial</b> searches RNA databases for <a href= - "http://www.ncbi.nlm.nih.gov/projects/GeneRIF/GeneRIFhelp.html" target="_blank"> - GeneRIF</a> links.</li> - - <li><b>WIKI=nicotine</b> searches <a href= - "http://www.genenetwork.org/webqtl/main.py?FormID=geneWiki" target="_blank"> - GeneWiki</a> for genes that you or other users have annotated - with the word <i>nicotine</i>.</li> - - <li><b>GO:0045202</b> searches for synapse-associated genes listed in the - <a href="http://www.godatabase.org/cgi-bin/amigo/go.cgi" target="_blank"> - Gene Ontology</a>.</li> - - <li><b>GO:0045202 LRS=(9 99 Chr4 122 155) cisLRS=(9 999 10)</b> - finds synapse-associated genes with <a href= - "http://www.genenetwork.org/glossary.html#E" target="_blank"> - cis eQTL</a> on Chr 4 from 122 and 155 Mb with LRS scores - between 9 and 999.</li> - - <li><b>RIF=diabetes LRS=(9 999 Chr2 100 105) transLRS=(9 999 10)</b> - finds diabetes-associated transcripts with peak <a href= - "http://www.genenetwork.org/glossary.html#E" target="_blank"> - trans eQTLs</a> on Chr 2 between 100 and 105 Mb with LRS - scores between 9 and 999.</li> - </ul> - </section> - - <section id="tour-info"> - <div class="page-header"> - <h1>Tour and more info</h1> - </div> - - <h3>Thirty minute tour</h3> - <p> - Take the 30 minute - GeneNetwork <a href="http://www.genenetwork.org/tutorial/WebQTLTour/" target= - "_blank" class="fs14">tour</a> that includes screen shots and - typical steps in the analysis. - </p> - - <h3>Even more info</h3> - <p> - For information about - resources and methods, select the Info buttons next to the Group - and Database fields above. - </p> - - <p>The <a href= - "/conditionsofUse.html" target="_blank">conditions</a> - and <a href="/statusandContact.html" target="_blank">contact - </a> pages have information on the status of data sets - and advice on their use and citation.</p> - - </section> - - <section id="websites"> - <div class="page-header"> - <h1>Affiliates and mirrors</h1> - </div> - <h3>Websites affiliated with GeneNetwork</h3> - <ul> - <li><a href="http://ucscbrowser.genenetwork.org/" target="_blank">Genome - browser</a> at UTHSC</li> - - <li><a href="http://galaxy.genenetwork.org/" target="_blank">Galaxy</a> at - UTHSC</li> - - <li>GeneNetwork at <a href="http://ec2.genenetwork.org/" target="_blank">Amazon - Cloud (EC2)</a></li> - - <li>GeneNetwork Source Code at <a href= - "http://sourceforge.net/projects/genenetwork/" target="_blank">SourceForge</a></li> - - <li>GeneNetwork Source Code at <a href= - "https://github.com/genenetwork/genenetwork" target="_blank">GitHub</a></li> - </ul> - <h3>Mirror and development sites</h3> - <ul> - <li><a href="http://www.genenetwork.org/" target="_blank"> - Main GN site</a> at UTHSC</li> - - <li><a href="http://www.genenetwork.waimr.uwa.edu.au/" target="_blank"> - Australia</a> at the UWA</li> - - <li><a href="http://gn.genetics.ucla.edu/" target="_blank"> - California</a> at UCLA</li> - - <li><a href="http://genenetwork.helmholtz-hzi.de/" target="_blank"> - Germany</a> at the HZI</li> - - <li><a href="https://genenetwork.hubrecht.eu/" target="_blank"> - Netherlands</a> at the Hubrecht - (development)</li> - - <li><a href="http://genenetwork.memphis.edu/" target="_blank"> - Memphis</a> at the U of M</li> - - <li><a href="http://webqtl.bic.nus.edu.sg/" target="_blank"> - Singapore</a> at the NUS</li> - - <li><a href="http://genenetwork.epfl.ch/" target="_blank"> - Switzerland</a> at the EPFL</li> - </ul> - <h3>History and archive</h3> - - <p>The - <a href="http://artemis.uthsc.edu" target="_blank"> - time machine</a> - has earlier versions that correspond to specific publication dates. - </p> - - <h3>The next generation</h3> - <p>Try the <a href= - "http://alexandria.uthsc.edu/" target="_blank"> - development</a> site to explore experimental data and features.</p> - </section> - </div> - </div> - </div> - - <!-- Footer - ================================================== --> - <footer class="footer"> - <div class="container"> - <p class="pull-right"><a href="#">Back to top</a></p> - - <p>Launched in 1994 as - <A HREF="http://www.ncbi.nlm.nih.gov/pubmed?term=8043953"> - The Portable Dictionary of the Mouse Genome</A> and in 2001 as WebQTL. - </p> - <p>Operated by - <A HREF="mailto:rwilliams@uthsc.edu">Rob Williams</A>, - <A HREF="mailto:lyan6@uthsc.edu">Lei Yan</A>, - <A HREF="mailto:zachary.a.sloan@gmail.com">Zachary Sloan</A>, and - <A HREF="mailto:acenteno@uthsc.edu" target="_blank">Arthur Centeno</A>. - </p> - <p> - Designed and coded by <a href="http://penguinpython.com">Sam Ockman</a>, Xiaodong Zhou, - Christian Fernandez, - Ning Liu, Rudi Alberts, Elissa Chesler, Jintao Wang, Kenneth Manly, Robert W. Williams, - and <A HREF="/credit.html">colleagues</A>. - </p> - - <p>Built with <a href="http://twitter.github.com/bootstrap/">bootstrap</a>, - <a href="http://coffeescript.org/">coffeescript</a>, - <a href="http://flask.pocoo.org/">flask</a>, - <a href="http://en.wikipedia.org/wiki/Linux">linux</a>, - <a href="http://www.python.org/">python</a> and good intentions. - </p> - <p>Special thanks to CYP1A2 and AHR.</p> - <br /> - <p>GeneNetwork is supported by:</p> - <UL> - <LI> - <a target="_blank" href="http://citg.uthsc.edu"> - The UT Center for Integrative and Translational Genomics - </A> - </li> - <LI><a target="_blank" href="http://www.iniastress.org">NIAAA</A> - Integrative Neuroscience Initiative on Alcoholism - (U01 AA016662, U01 AA013499, U24 AA013513, U01 AA014425) - </li> - <LI> - <a target="_blank" - href="http://www.drugabuse.gov/about/organization/Genetics/geneexpression/index.html">NIDA</A>, <a class="smallsize" target="_blank" href="http://www.nimh.nih.gov/">NIMH</A> - , and <a class="smallsize" target="_blank" href="http://www.niaaa.nih.gov/"> - NIAAA</A> (P20-DA 21131) - </li> - <LI>NCI <a target="_blank" href="http://emice.nci.nih.gov/">MMHCC</A> (U01CA105417) and - <a target="_blank" href="http://www.ncrr.nih.gov/">NCRR</A> - <a target="_blank" href="http://www.nbirn.net/TestBeds/Mouse/index.htm">BIRN</A> - (U24 RR021760) - </li> - </UL> - <!--</p>--> - - <ul class="footer-links"> - <li><a href="http://atlas.uthsc.edu/mailman/listinfo/genenetwork" target="_blank">Join the mailing list</a></li> - <!--<li><a href="#">Friend us on facebook</a></li>--> - <!--<li><a href="#">Follow us on twitter</a></li>--> - </ul> - </div> - </footer> - - <script src="https://ajax.googleapis.com/ajax/libs/jquery/1.8.2/jquery.min.js"></script> - <script src="/static/packages/bootstrap/js/bootstrap.min.js"></script> - <script> - //http://stackoverflow.com/questions/11521763/bootstrap-scrollspy-not-working - var $window = $(window) - $('.bs-docs-sidenav').affix({ - offset: { - top: function () { return $window.width() <= 980 ? 290 : 210 } - , bottom: 270 - } - }) - </script> - <!--<SCRIPT SRC="/javascript/webqtl.js"></SCRIPT>--> - <!--<script src="/static/new/javascript/dataset_menu_structure.json"></script>--> - <!--<script src="/static/new/javascript/dataset_select_items.js"></script>--> - <script src="/static/new/js_external/jquery.cookie.js"></script> - <script type="text/javascript" src="/static/new/js_external/json2.js"></script> - <script src="/static/new/javascript/dataset_select_menu.js"></script> -</body> -</html> |