TimeTree :: The Timescale of Life

<!DOCTYPE html> <html lang="en"> <head> <meta charset="utf-8" /> <meta name="viewport" content="width=device-width, initial-scale=1" /> <title>TimeTree :: The Timescale of Life</title>  <script src="/public/js/jquery-2.2.3.min.js"></script> <script src="/public/js/bootstrap.min.js"></script> <script src="/public/js/jquery-ui-1.11.4.min.js"></script> <script src="/public/js/jquery.validate.min.js"></script> <script src="/public/js/jquery.ctrl-forward.js"></script> <script src="https://cdnjs.cloudflare.com/ajax/libs/pdfmake/0.1.36/pdfmake.min.js"></script> <script src="https://cdnjs.cloudflare.com/ajax/libs/pdfmake/0.1.36/vfs_fonts.js"></script> <script src="https://cdn.datatables.net/v/ju/jszip-2.5.0/dt-1.10.18/b-1.5.4/b-colvis-1.5.4/b-html5-1.5.4/b-print-1.5.4/cr-1.5.0/fh-3.1.4/rg-1.1.0/rr-1.2.4/sc-1.5.0/sl-1.2.6/datatables.min.js"></script> <script src="https://cdn.datatables.net/fixedheader/3.1.5/js/dataTables.fixedHeader.min.js"></script> <script src="/public/js/app.js" defer></script> <script src="/public/js/evol-colorpicker.min.js" type="text/javascript" charset="utf-8"></script>  <link rel="stylesheet" href="/public/css/bootstrap.min.css" /> <link rel="stylesheet" href="/public/css/jquery-ui.min.css" /> <link rel="stylesheet" type="text/css" href="https://cdn.datatables.net/v/ju/jszip-2.5.0/dt-1.10.18/b-1.5.4/b-colvis-1.5.4/b-html5-1.5.4/b-print-1.5.4/cr-1.5.0/fh-3.1.4/rg-1.1.0/rr-1.2.4/sc-1.5.0/sl-1.2.6/datatables.min.css" /> <link rel="stylesheet" href="/public/css/references.css" /> <link rel="stylesheet" href="/public/css/styles.css" /> <link rel="stylesheet" href="/public/css/search.css"> <link rel="stylesheet" href="/public/css/widget.css"> <link rel="stylesheet" href="/public/css/evol-colorpicker.min.css">  <link rel="icon" type="image/png" href="/public/img/favicon-16x16.png" sizes="16x16" /> <link rel="icon" type="image/png" href="/public/img/favicon-32x32.png" sizes="32x32" /> <link rel="icon" type="image/png" href="/public/img/favicon-96x96.png" sizes="96x96" />  <link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/4.7.0/css/font-awesome.min.css" /> </head> <body> <a href="#content" class="skip-content">Skip to main content</a> <header> <div class="container"> <div class="row"> <div class="col-xs-8 col-sm-4"> <a href="/" aria-label="Home"><img src="/public/img/timetree_logo.svg" class="logo" alt="Timetree logo" height="50" /></a> </div> <div class="mobile-menu hidden-sm hidden-md hidden-lg"> <input type="checkbox" id="toggle" style="display: none" /> <label class="toggle-btn toggle-btn__cross" for="toggle"> <div class="bar"></div> <div class="bar"></div> <div class="bar"></div> </label> <nav class="mobile-nav"> <ul> <li class="program-name"> <a href="/" aria-label="Home"><img src="/public/img/timetree_logo.svg" class="logo" alt="Timetree logo" height="70" /></a> </li> <li class="main-nav-link"> <a href="/about" class="">About</a> </li> <li class="main-nav-link"> <a href="/book" class="">Book</a> </li> <li class="main-nav-link"> <a href="/references" class="">Studies</a> </li> <li class="main-nav-link"> <a href="/resources" class="">Resources</a> </li> <li class="main-nav-link"> <a href="/movies" class="">Movie</a> </li> <li class="main-nav-link"> <a href="/news" class="">News</a> </li> <li class="main-nav-link"> <a href="/faqs" class="">FAQs</a> </li> <li class="main-nav-link"> <a href="/contact" class="">Contact</a> </li> </ul> </nav> </div> <div class="col-sm-8 hidden-xs"> <div class="row"> <div class="col-md-12"> <div class="study-species-counter"> <div class="studies"> 4,185 <a href="/references" class="study-species-counter-label">Studies</a> </div> <div class="species"> 148,876 <span class="study-species-counter-label">Species</span> </div> </div> </div> <div class="col-sm-12"> <nav class="main-nav nav"> <ul class="main-nav-links-list"> <li class="main-nav-link"> <a href="/about" class="">About</a> </li> <li class="main-nav-link"> <a href="/book" class="">Book</a> </li> <li class="main-nav-link"> <a href="/references" class="">Studies</a> </li> <li class="main-nav-link"> <a href="/resources" class="">Resources</a> </li> <li class="main-nav-link"> <a href="/movies" class="">Movie</a> </li> <li class="main-nav-link"> <a href="/news" class="">News</a> </li> <li class="main-nav-link"> <a href="/faqs" class="">FAQs</a> </li> <li class="main-nav-link"> <a href="/contact" class="">Contact</a> </li> </ul> </nav> </div> </div> </div> </div> </div> </header> <main id="content">  <div class="tabs-background"> <div class="tabs">  <input id="search-tab" type="radio" name="tabs" checked> <label for="search-tab" tabindex="0">Search</label>  <input id="pairtime-tab" type="radio" name="tabs"> <label for="pairtime-tab" tabindex="0" class="pairtime-tab hidden">Divergence Time</label>  <input id="timeline-tab" type="radio" name="tabs"> <label for="timeline-tab" tabindex="0" class="timeline-tab hidden">Timeline</label>  <input id="timetree-tab" type="radio" name="tabs"> <label for="timetree-tab" tabindex="0" class="timetree-tab hidden">Timetree</label>  <input id="prunetree-tab" type="radio" name="tabs"> <label for="prunetree-tab" tabindex="0" class="prunetree-tab hidden">Timetree</label> </div> </div> <div id="search-content" class="container tab-content"> <div class="row">  <div class="hidden-xs col-sm-8 col-sm-offset-2 col-md-7 col-md-offset-0"> <h1 class="timetree-main-heading">Timetree of Life</h1> <p> TimeTree is a public knowledge-base for information on the evolutionary timescale of life. Data from thousands of published studies are assembled into a searchable tree of life scaled to time. </p> <p> <strong>Timepanels</strong> showing events in geological time and astronomical history are provided for comparison with timelines and timetrees. Results can be exported in different formats for additional analyses and publication. </p> </div> <div class="hidden-xs col-xs-8 col-xs-offset-2 col-sm-8 col-sm-offset-2 col-md-4 col-md-offset-1 slideshow"> <div id="carousel-example-generic" class="carousel slide" data-ride="carousel">  <ol class="carousel-indicators"> <li data-target="#carousel-example-generic" data-slide-to="0" class="active"></li> <li data-target="#carousel-example-generic" data-slide-to="1"></li> <li data-target="#carousel-example-generic" data-slide-to="2"></li> <li data-target="#carousel-example-generic" data-slide-to="3"></li> <li data-target="#carousel-example-generic" data-slide-to="4"></li> <li data-target="#carousel-example-generic" data-slide-to="5"></li> </ol>  <div class="carousel-inner" role="listbox"> <div class="item active"> <a href="http://timetree.org/movies"> <img src="/public/img/slide01.jpg" alt=""> <div class="carousel-caption"> <p><em>TimeTree</em> in Emmy Award-winning movie Attenborough's Rise of Animals (2016)</p> </div> </a> </div> <div class="item"> <a href="http://timetree.org/movies"> <img src="/public/img/slide02.jpg" alt=""> <div class="carousel-caption"> <p><em>TimeTree</em> in Emmy Award-winning movie Attenborough's Rise of Animals (2016)</p> </div> </a> </div> <div class="item"> <a href="http://timetree.org/movies"> <img src="/public/img/slide03.jpg" alt=""> <div class="carousel-caption"> <p><em>TimeTree</em> in Emmy Award-winning movie Attenborough's Rise of Animals (2016)</p> </div> </a> </div> <div class="item"> <a href="http://timetree.org/book"> <img src="/public/img/slide04.jpg" alt=""> <div class="carousel-caption"> <p>Timetree of Life book (2009)</p> </div> </a> </div> <div class="item"> <a href="http://timetree.org/public/data/poster/timetree_lg.jpg" target="_blank"> <img src="/public/img/slide05.jpg" alt=""> <div class="carousel-caption"> <p>Timetree of Life poster (2009)</p> </div> </a> </div> <div class="item"> <a href="http://timetree.org/public/img/timetree-spiral-2.png" target="_blank"> <img src="/public/img/slide06.jpg" alt=""> <div class="carousel-caption"> <p>Timetree of Life poster (2015)</p> </div> </a> </div> </div> </div>  <a class="left carousel-control" href="#carousel-example-generic" role="button" data-slide="prev"> <span class="glyphicon icon-prev" aria-hidden="true"></span> <span class="sr-only">Previous</span> </a> <a class="right carousel-control" href="#carousel-example-generic" role="button" data-slide="next"> <span class="glyphicon icon-next" aria-hidden="true"></span> <span class="sr-only">Next</span> </a> </div>  <div class="col-xs-12">  <h1 class="search-heading hidden-sm hidden-md hidden-lg">Search</h1> <h2 class="search-heading hidden-xs">Search</h2> </div> <div class="col-xs-12"> <div class="row">  <div class="col-xs-12"> <h3 id="pairwise-search-header" class="search-category">Get Divergence Time</h3> </div> <div class="hidden-xs col-xs-3 col-sm-1"> <img src="/public/img/node_time_thumbnail.svg" class="search-thumbnail" alt="Node Time" /> </div>   <div class="col-xs-12 col-sm-3"> <div class="search-step-container"> <h4 class="search-step"> Specify 2 Taxon Names <i class="tooltip-help" title="Enter two taxa names to search the Timetree database."></i> </h4> <form name="pairwise_search" id="pairwise_search" action="/ajax/names/[#taxon-a]/[#taxon-b]" method="post"> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-3 col-sm-offset-0 search-label-container"> <label class="search-label" for="taxon-a"><strong>Taxon 1:</strong></label> </div> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-0"> <input class="search-field" name="taxon_a" id="taxon-a" type="text" title="Required Field"> </div> </div> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-3 col-sm-offset-0 search-label-container"> <label class="search-label" for="taxon-b"><strong>Taxon 2:</strong></label> </div> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-0"> <input class="search-field" name="taxon_b" id="taxon-b" type="text" title="Required Field"> </div> </div> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-3"> <button id="pairwise-search-button1" type="submit" class="search-button" data-forward="/ajax/names/[#taxon-a]/[#taxon-b]" onclick="ga('set', 'dimension4', $('#taxon-a').val());ga('set', 'dimension5', $('#taxon-b').val());ga('send', 'event', 'pairwise', 'search');">Search</button> </div> </div> </form> </div> </div> <div class="col-xs-12 col-sm-1"> <img class="progression-arrow" src="/public/img/redesign/arrow.svg" alt="Arrow pointing to the next step"> </div>   <div class="col-xs-12 col-sm-3"> <div class="disabled search-step-container" id="pairwise-resolve-container"> <div class="hidden-sm hidden-md hidden-lg"> <div id="pairwise-search-header" class="search-category">Get Divergence Time</div> </div> <h4 class="search-step"> Resolve Ambiguity <i class="tooltip-help" title="Please select from multiple search results"></i> </h4> <form id="pairwise-resolve" action="/ajax/pairwise/[#pairwise-resolve-taxon-a1]/[#pairwise-resolve-taxon-b1]" method="post"> <div id="pairwise-resolve-target"> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-3 col-sm-offset-0"> <label class="search-label" for="pairwise-resolve-taxon-a">Taxon 1:</label> </div> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-0"> <select class="search-field" id="pairwise-resolve-taxon-a" disabled></select> </div> </div> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-3 col-sm-offset-0"> <label class="search-label" for="pairwise-resolve-taxon-b">Taxon 2:</label> </div> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-0"> <select class="search-field" id="pairwise-resolve-taxon-b" disabled></select> </div> </div> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-3"> <button disabled id="pairwise-resolve-button2" type="submit" class="search-button" data-forward="/ajax/pairwise/[#taxon-a]/[#taxon-b]">Show Time</button> </div> </div> </div> </form> </div> </div> </div> </div> <div class="col-xs-12"> <hr> </div> <div class="col-xs-12"> <div class="row">  <div class="col-xs-12"> <h3 id="timeline-search-header" class="search-category">Get an Evolutionary Timeline</h3> </div> <div class="hidden-xs col-xs-3 col-sm-1"> <img src="/public/img/timeline_thumbnail.svg" class="search-thumbnail" alt="Timeline" /> </div>   <div class="col-xs-12 col-sm-3"> <div class="search-step-container"> <h4 class="search-step"> Specify a Taxon Name <i class="tooltip-help" title="Enter the name of the taxon for which you wish to build an evolutionary timeline."></i> </h4> <form id="timeline-search" action="/ajax/name/timeline/[#timeline-taxon]" method="post"> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-3 col-sm-offset-0 search-label-container"> <label class="search-label" for="timeline-taxon"><strong>Taxon:</strong></label> </div> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-0"> <input class="search-field" id="timeline-taxon" name="timeline_taxon" type="text" title="Required Field"> </div> </div> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-3"> <button id="timeline-search-button1" class="search-button" type="submit" data-forward="/ajax/name/timeline/[#timeline-taxon]" onclick="ga('set', 'dimension4', $('#timeline-taxon').val());ga('send', 'event', 'timeline', 'search');">Search</button> </div> </div> </form> </div> </div> <div class="col-xs-12 col-sm-1"> <img class="progression-arrow" src="/public/img/redesign/arrow.svg" alt="Arrow pointing to the next step"> </div>   <div class="col-xs-12 col-sm-3"> <div id="timeline-resolve" class="search-resolve disabled search-step-container"> <div class="hidden-sm hidden-md hidden-lg"> <div id="timeline-search-header" class="search-category">Get an Evolutionary Timeline</div> </div> <h4 class="search-step disabled"> Resolve Ambiguity <i class="tooltip-help" title="Please select a taxon from multiple search results"></i> </h4> <div class="search-resolve" id="pairwise-search-resolve"> <div class="disabled" id="pairwise-resolve-container"> <form id="timeline_resolve_name_form" action="/ajax/timeline/[#timeline-resolve-target]" method="post"> <div id="timeline-resolve-placeholder"> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-3 col-sm-offset-0"> <label class="search-label" for="timetree-resolve-target3">Taxon:</label> </div> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-0"> <select class="search-field" id="timetree-resolve-target3"></select> </div> </div> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-3"> <button id="timeline-name-select-submit" type="submit" class="search-button" data-forward="/ajax/timeline/[#timeline-resolve-target]" onclick="ga('send', 'pageview', '/test');">Show Timeline</button> </div> </div> </div> </form> </div> </div> </div> </div> </div> </div> <div class="col-xs-12"> <hr> </div> <div class="col-xs-12"> <div class="row">  <div class="col-xs-12"> <h3 id="timeline-search-header" class="search-category">Build a Timetree</h3> </div> <div class="hidden-xs col-xs-3 col-sm-1"> <img src="public/img/timetree_thumbnail.svg" class="search-thumbnail" alt="Timetree" /> </div>   <div class="col-xs-12 col-sm-3"> <div class="search-step-container"> <h4 class="search-step"> Specify a Group of Taxa <i class="tooltip-help" title="Specify a taxa group to build a timetree for (e.g. "primates")."></i> </h4> <form id="timetree_search" action="/ajax/name/timetree/[#timetree-taxon]" method="post"> <div class="row"> <div class="col-xs-offset-1 col-sm-3 col-sm-offset-0 search-label-container"> <label class="search-label" for="timetree-taxon"><strong>Group:</strong></label> </div> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-0"> <input name="timetree_taxon" id="timetree-taxon" class="search-field" type="text" > </div> </div> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-3"> <button id="timetree-search-button1" type="submit" class="search-button" data-forward="/ajax/name/timetree/[#timetree-taxon]" onclick="ga('set', 'dimension4', $('#timetree-taxon').val());ga('send', 'event', 'timetree', 'search');">Search</button> </div> </div> </form> </div> </div> <div class="col-xs-12 col-sm-1"> <img class="progression-arrow" src="/public/img/redesign/arrow.svg" alt="Arrow pointing to the next step"> </div>   <div class="col-xs-12 col-sm-3"> <div id="timetree-resolve" class="search-resolve disabled search-step-container"> <div class="hidden-sm hidden-md hidden-lg"> <div id="timeline-search-header" class="search-category">Build a Timetree</div> </div> <h4 class="search-step disabled"> Resolve Ambiguity <i class="tooltip-help" title="Please select a taxa group from multiple search results"></i> </h4> <div class="search-resolve" id="pairwise-search-resolve"> <div class="disabled" id="pairwise-resolve-container"> <form id="timetree-get-taxonomy" action="/ajax/taxonomy/[#timetree-resolve-target]" method="post"> <div id="timetree-resolve-placeholder" class="timetree-resolve-placeholder"> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-3 col-sm-offset-0"> <label class="search-label" for="timetree-resolve-target2">Group:</label> </div> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-0"> <select class="search-field" id="timetree-resolve-target2"></select> </div> </div> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-3"> <button disabled id="timetree-name-select-submit" type="submit" class="search-button" data-forward="/ajax/taxonomy/[#timetree-resolve-target]">Update</button> </div> </div> </div> </form> </div> </div> </div> </div> <div class="col-xs-12 col-sm-1"> <img class="progression-arrow" src="/public/img/redesign/arrow.svg" alt="Arrow pointing to the next step"> </div>   <div class="col-xs-12 col-sm-3"> <div id="timetree-levels" class="search-resolve disabled search-step-container"> <div class="hidden-sm hidden-md hidden-lg"> <div id="timeline-search-header" class="search-category">Build a Timetree</div> </div> <h4 class="search-step disabled"> Select Taxonomic Rank <i class="tooltip-help" title="Specify the most-inclusive taxonimic rank for building the tree"></i> </h4> <form id="timetree-build-widget" action="/ajax/timetree/[#timetree-resolve-target]/[#timetree-taxonomy-resolve]" method="post"> <div id="timetree-taxonomy-resolve-placeholder"> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-3 col-sm-offset-0"> <label class="search-label" for="timetree-taxonomy-resolve">Rank:</label> </div> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-0"> <select disabled id="timetree-taxonomy-resolve" class="col-xs-12 search-field" name="rank"> </select> </div> </div> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-3"> <button id="rank-select-button" class="search-button" type="submit" disabled>Show Timetree</button> </div> </div> </div> </form> <form id="do-direct-download-form" action="/ajax/direct_download"> <input type="hidden" id="direct-download-format" name="direct-download-format" value="newick"/> <input type="hidden" id="direct-download-id" name="direct-download-id" value=""/> <input type="hidden" id="direct-download-rank" name="direct-download-rank" value=""/> </form> </div> </div> </div> </div>  <div class="hidden-xs col-sm-3 col-sm-offset-1"> <p class="or-heading">or</p> </div> <div class="hidden-xs col-xs-12 col-sm-9 col-sm-offset-1"> <h3 class="search-step"> Load a List of Species <i class="tooltip-help" title="Load a text file with a list of taxa names to build a timetree for (each name must be on a separate line)."></i> </h3> <form id="prunetree_search" name="prunetree_search" action="/ajax/prune/load_names" method="post" enctype="multipart/form-data"> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-1 col-sm-offset-0"> <label class="search-label">Upload:</label> </div> <div class="col-xs-10 col-xs-offset-1 col-sm-9 col-sm-offset-0"> <input id="prunetree_upload" name="prunetree_upload" type="file" title="Please select a file of taxa names to upload"> </div> </div> <div class="row"> <div class="col-xs-10 col-xs-offset-1 col-sm-3 col-sm-offset-1"> <button id="prunetree-upload-button1" class="search-button" type="submit" onclick="ga('send', 'event', 'User Upload', 'Species List');">Upload</button> </div> </div> </form> </div> </div> </div>   <div id="pairtime-content" class="container tab-content"> <div id="pairtime-results"></div> </div>   <div id="timeline-content" class="container tab-content"> <div id="timeline-widget"> </div> </div>   <div id="timetree-content" class="container tab-content"> <div id="timetree-widget"> </div> </div>   <div id="prunetree-content" class="container tab-content"> <div id="prunetree-widget"> </div> </div> <div id="geo-timescale-context-menu" title="Geologic Timescale"> <div class="context-content"> <div id="time-name"> <span class="context-menu-item-name">Name:</span> <span class="context-menu-item-value"></span> </div> <div id="time-unit"> <span class="context-menu-item-name">Unit:</span> <span class="context-menu-item-value"></span> </div> <div id="time-begin"> <span class="context-menu-item-name">Begin:</span> <span class="context-menu-item-value"></span> </div> <div id="time-end"> <span class="context-menu-item-name">End:</span> <span class="context-menu-item-value"></span> </div> </div> </div> <div id="impacts-context-menu" title="Impact Data" class="context-menu"> <div class="context-content"> <div id="impact-name"> <span class="context-menu-item-name">Name:</span> <span class="context-menu-item-value"></span> </div> <div id="impact-location"> <span class="context-menu-item-name">Location:</span> <span class="context-menu-item-value"></span> </div> <div id="impact-coords"> <span class="context-menu-item-name">Coordinates:</span> <span class="context-menu-item-value"></span> </div> <div id="impact-diameter"> <span class="context-menu-item-name">Diameter:</span> <span class="context-menu-item-value"></span> </div> <div id="impact-age"> <span class="context-menu-item-name">Age:</span> <span class="context-menu-item-value"></span> </div> </div> </div> <div id="timetree-context-menu" title="Node Summary" class="context-menu"> <div class="context-content"> <div id="taxon-name"> <span class="context-menu-item-name">Name:</span> <span class="context-menu-item-value"></span> </div> <div id="taxonomic-rank"> <span class="context-menu-item-name">Rank:</span> <span class="context-menu-item-value"></span> </div> <div id="descendent-of"> <span class="context-menu-item-name">Descendant of:</span> <span class="context-menu-item-value"></span> </div> <div id="child-taxa-count"> <span class="context-menu-item-name">Clade Size:</span> <span class="context-menu-item-value"></span> </div> <div id="divergence-time"> <span class="context-menu-item-name">Estimated Time:</span> <span class="context-menu-item-value"></span> </div> <div id="adjusted-time"> <span class="context-menu-item-name">Adjusted Time:</span> <span class="context-menu-item-value"></span> </div> <div id="confidence-interval"> <span class="context-menu-item-name">CI:</span> <span class="context-menu-item-value"></span> </div> <div id="ncbi-coverage"> <span class="context-menu-item-name">NCBI Coverage:</span> <span class="context-menu-item-value"></span> </div> <div id="ncbi-link"> <span class="context-menu-item-name">NCBI Link:</span> <span class="context-menu-item-value"><a target="_blank" href=""></a></span> </div> <div class="menu-actions"> <form id="search-tree-form" action="/search/subtree/name/" method="post" target="_blank"> <input type="hidden" name="taxonName" value="" id="selectedNodeName"/> <button id="get-subtree-button" class='context-menu-btn' type="submit">Get Subtree</button> </form> <button id="get-timetable-button" name="timetree-timetable-btn" class= "show-timetable context-menu-btn" data-url="/api/widget/timetree/studies/-1/test">Show Timetable</button> </div> <span class="text"></span> </div> <script> $('#get-subtree-button').click(function(e){ e.preventDefault(); $('#search-tab').click(); $('#search-tab').click(); var node = $('#selectedNodeName').val(); node = decodeURI(node); console.log('node is: ' + node); $('#timetree-taxon').val(node); $('#timetree-search-button1').click(); }); </script> </div> <div id="timeline-context-menu" title="Node Summary" class="context-menu"> <div class="context-content"> <div id="timeline-taxon-name"> <span class="context-menu-item-name">Name:</span> <span class="context-menu-item-value"></span> </div> <div id="timeline-taxonomic-rank"> <span class="context-menu-item-name">Rank:</span> <span class="context-menu-item-value"></span> </div> <div id="timeline-time"> <span class="context-menu-item-name">Estimated Time:</span> <span class="context-menu-item-value"></span> </div> <div id="timeline-ci"> <span class="context-menu-item-name">CI:</span> <span class="context-menu-item-value"></span> </div> <div id="timeline-ncbi-link"> <span class="context-menu-item-name">NCBI Link:</span> <span class="context-menu-item-value"><a target="_blank" href=""></a></span> </div> <div class="menu-actions"> <form id="timeline-search-tree-form" action="/ajax/name/timetree/" method="post" target="_blank"> <input type="hidden" name="taxonName" value="" id="timelineSelectedNodeName"/> <button id="timeline-subtree-button" class='context-menu-btn' type="submit">Get Timetree</button> </form> </div> <span class="text"></span> </div> <script> $('#timeline-subtree-button').click(function(e){ e.preventDefault(); $('#search-tab').click(); $('#search-tab').click(); var node = $('#timelineSelectedNodeName').val(); node = decodeURI(node); console.log('node is: ' + node); $('#timetree-taxon').val(node); $('#timetree-search-button1').click(); }); </script> </div> </main> <footer> <div class="container"> <div class="row"> <div class="col-sm-2 col-sm-offset-1 hidden-xs"> <h2 class="footer-heading" id="site-links">Site Links</h2> <nav aria-labelledby="site-links"> <ul class="site-links-list"> <li class="site-links-link"> <a href="/about" class="">About</a> </li> <li class="site-links-link"> <a href="/book" class="">Book</a> </li> <li class="site-links-link"> <a href="/references" class="">Studies</a> </li> <li class="site-links-link"> <a href="/resources" class="">Resources</a> </li> <li class="main-nav-link"> <a href="/movies" class="">Movie</a> </li> <li class="site-links-link"> <a href="/news" class="">News</a> </li> <li class="site-links-link"> <a href="/faqs" class="">FAQs</a> </li> <li class="site-links-link"> <a href="/contact" class="">Contact</a> </li> </ul> </nav> </div> <div class="col-xs-12 col-sm-4 col-sm-offset-1"> <h2 class="footer-heading" id="footer-contact">Contact</h2> <address class="footer-contact" aria-labelledby="footer-contact"> Institute for Genomics and Evolutionary Medicine<br /> Center of Biodiversity<br /> Temple University<br /> 1925 N. 12th Street<br /> Philadelphia, PA 19122-1801<br /> Email: <a href="mailto:info@timetree.org" target="_top">info@timetree.org</a> </address> </div> <div class="col-xs-12 col-sm-3"> <h2 class="footer-heading" id="ios-app">iOS App</h2> <p aria-labelledby="ios-app"> <a href="https://itunes.apple.com/us/app/timetree-4/id372842500?mt=8" target="_blank">Download the TimeTree app</a> on the App Store </p> </div> <div class="col-xs-12 col-sm-10 col-sm-offset-1"> <p class="copyright-info"> <small>Copyright © 2005 – 2025. Data and syntheses accessed from TimeTree are provided openly for personal research and teaching use. Requests to use these data for all other purposes must be sent to <a href="mailto:info@timetree.org">info@timetree.org</a>. Redistribution of TimeTree data and its transformations are not permitted. Publications utilizing the TimeTree resource or data are encouraged to include a citation to TimeTree. Please write to <a href="mailto:info@timetree.org">info@timetree.org</a> for clarifications.</small> </p> <p class="copyright-info"> <small>Note: copyright holders expressly disclaim any warranty for processed study timetrees and other data accessed from these resources. Data are provided 'As Is' without any express or implied warranty of any kind, including but not limited to any warranties of merchantability, non-infringement, or fitness for a particular purpose.</small> </p> <p class="citation-directions"> <small><strong>CITE THIS RESOURCE AS</strong>: S. Kumar, M. Suleski, J.E. Craig, A.E. Kasprowicz, M. Sanderford, M. Li, G. Stecher, and S.B. Hedges, 2022. <a class="pdflink" href="https://academic.oup.com/mbe/advance-article/doi/10.1093/molbev/msac174/6657692" target="_blank">TimeTree 5: An Expanded Resource for Species Divergence Times</a>. Molecular Biology and Evolution, DOI: 10.1093/molbev/msac174.</small> </p> </div> </div> </div> </footer> <script src="/public/js/jquery.ajax-load.js"></script> <script src="/public/js/widgets/common.js"></script> <script> $('.tooltip-help').tooltip({ tooltipClass: 'tooltip-style', position: { my: 'left bottom', at: 'left top' } }); // PAIRWISE $('#pairwise_search').ajaxLoad({ target: $('#pairwise-resolve-target'), beforeSubmit: function () { var taxonA = $('#taxon-a').val(); var taxonB = $('#taxon-b').val(); if ((taxonA == null) || (taxonA.trim() == '') || (taxonB == null) || (taxonB.trim() == '')) { messageDialog.show('Pairwise search requires two taxa names'); return false; } else if (containsIllegalChars(taxonA) == true) { messageDialog.show('Taxon 1 contains invalid characters'); return false; } else if (containsIllegalChars(taxonB) == true) { messageDialog.show('Taxon 2 contains invalid characters'); return false; } waitingDialog.show(); }, afterLoad: function () { $('#pairwise-search-resolve').show(); var list1 = $('#pairwise-resolve-taxon-a1 option'); var list2 = $('#pairwise-resolve-taxon-b1 option'); $("#pairwise-resolve-button1").attr("onclick","ga('set', 'dimension1', $('#pairwise-resolve-taxon-a1 option')[$('#pairwise-resolve-taxon-a1 option:selected').index()].text);ga('set', 'dimension2', $('#pairwise-resolve-taxon-b1 option')[$('#pairwise-resolve-taxon-b1 option:selected').index()].text);ga('send', 'event', 'pairwise', 'search-resolve');"); if ((list1 !== null) && (list1.length == 1) && (list2 !== null) && (list2.length == 1)) $("#pairwise-resolve-button1").click(); else { hideModalProgress(); makeButtonBlink($("#pairwise-resolve-button1")); } $('#pairwise-resolve-container').removeClass('disabled'); } }); $('#pairwise-resolve').ajaxLoad({ target: $('#pairtime-results'), data: { 'taxon-a': function () { return $('#taxon-a').val() }, 'taxon-b': function () { return $('#taxon-b').val() }, }, beforeSubmit: function () { waitingDialog.show(); }, beforeLoad: function () { $('.pairtime-tab').removeClass('hidden'); $('#pairtime-tab').click(); $('#pairwise-resolve-button1').html('Show Time'); }, afterLoad: function () { $('#pairtime-tab').click(); // $('table.sortable').tablesorter(); sortTables('#time-estimates'); hideModalProgress(); } }); // TIMELINE $('#timeline-search').ajaxLoad({ target: $('#timeline-resolve-placeholder'), data: { select_tag_id: 'timeline-resolve-target' }, beforeSubmit: function() { var timelineTaxon = $('#timeline-taxon').val(); if ((timelineTaxon == null) || (timelineTaxon.trim() == '')) { messageDialog.show('Timeline search requires a taxon name'); return false; } else if (containsIllegalChars(timelineTaxon) == true) { messageDialog.show('The timeline query contains invalid characters'); return false; } waitingDialog.show(); }, beforeLoad: function() { }, afterLoad: function(data) { $('#timeline-resolve').show(); var taxaList = $('#timeline-resolve-target option'); $("#timeline-submit").attr("onclick","ga('set', 'dimension1', $('#timeline-resolve-target option')[$('#timeline-resolve-target option:selected').index()].text);ga('send', 'event', 'timeline', 'search-resolve');"); if ((taxaList !== null) && (taxaList.length ==1)) $('#timeline-submit').click(); else { hideModalProgress(); makeButtonBlink($("#timeline-submit")); } $('#timeline-resolve').removeClass('disabled'); } }); $('#timeline_resolve_name_form').ajaxLoad({ target: $('#timeline-widget'), data: { taxon: function () { return $('#timeline-taxon').val(); }, selected: function() { return $('#timeline-resolve-target').val(); } }, beforeSubmit: function () { waitingDialog.show(); }, beforeLoad: function () { $('#timeline-submit').html('Show Timeline'); $('.timeline-tab').removeClass('hidden'); $('#timeline-tab').click(); }, afterLoad: function () { $('#timeline-tab').click(); hideModalProgress(); } }); // TIMETREE $('#timetree_search').ajaxLoad({ target: $('.timetree-resolve-placeholder'), data: { select_tag_id: 'timetree-resolve-target', }, dependents: [$('#timetree-taxonomy-resolve')], beforeSubmit: function () { var queryStr = $('#timetree-taxon').val(); if ((queryStr == null) || (queryStr.trim() == '')) { messageDialog.show('Timetree search requires a taxon name'); return false; } else if (containsIllegalChars(queryStr) == true) { messageDialog.show('The search query contains invalid characters'); return false; } waitingDialog.show(); }, beforeLoad: function() { }, afterLoad: function () { $('#timetree-resolve').removeClass('disabled'); $('#timetree-taxonomy-resolve').html(''); $('#timetree-levels').addClass('disabled'); var dropdown = $('#timetree-resolve-target option'); if ((dropdown !== null) && (dropdown.length == 1)) $("#timetree-submit").click(); else { hideModalProgress(); makeButtonBlink($("#timetree-submit")); } } }); $('#timetree-get-taxonomy').ajaxLoad({ target: $('#timetree-taxonomy-resolve-placeholder'), data: { 'rank-id': 'timetree-taxonomy-resolve', 'select_tag_id': 'timetree-resolve-target' }, beforeSubmit: function () { waitingDialog.show(); }, beforeLoad: function() { }, afterLoad: function () { $('#timetree-levels').removeClass('disabled'); $("#rank-select-button").attr("onclick","ga('set', 'dimension1', $('#timetree-resolve-target option')[$('#timetree-resolve-target option:selected').index()].text);ga('set', 'dimension3', $('#timetree-taxonomy-resolve option')[$('#timetree-taxonomy-resolve option:selected').index()].text);ga('send', 'event', 'timetree', 'search-resolve');"); $("#generate-download-button").attr("onclick","ga('set', 'dimension1', $('#timetree-resolve-target option')[$('#timetree-resolve-target option:selected').index()].text);ga('set', 'dimension3', $('#timetree-taxonomy-resolve option')[$('#timetree-taxonomy-resolve option:selected').index()].text);ga('send', 'event', 'timetree', 'download-newick');doNewickDownload()"); hideModalProgress(); makeButtonBlink($("#rank-select-button")); } }); $('#timetree-build-widget').ajaxLoad({ target: $('#timetree-widget'), data: { taxon: function () { return $('#timetree-taxon').val() } }, beforeSubmit: function () { var lcount = $('#timetree-taxonomy-resolve option:selected').attr('lcount'); if (lcount >= 10000) { messageDialog.show('The requested tree is too large to display. Please select a taxonomic rank with less than 10,000 leaves or download the timetree directly.'); return false; } waitingDialog.show(); }, beforeLoad: function () { $('.timetree-tab').removeClass('hidden'); $('#timetree-tab').click(); }, afterLoad: function () { $('#rank-select-button').html('Show Timetree'); $('#timetree-tab').click(); hideModalProgress(); } }); // Prune Tree $('#prunetree-upload-button1').click(function(e) { e.preventDefault(); var formData = new FormData(); if ($('#prunetree_upload').val() == '') { messageDialog.show('Please select a file to upload'); return; } waitingDialog.show(); var input = $('#prunetree_upload')[0]; formData.append( 'file', input.files[0] ); $.ajax({ url: '/ajax/prune/load_names/', data: formData, processData: false, contentType: false, type: 'POST', success: function(data){ try { $('.prunetree-tab').removeClass('hidden'); $('#prunetree-widget').html(data); var msgBox = $('#prunetree-msg-box'); if (msgBox != null) { // move the error messages into the search tools box which does not get reloaded $('#prunetree-msg-container').html(msgBox.html()); msgBox.html(''); $('#prunetree-msg-btn').click(function() { if ($(this).hasClass('error-btn-enabled')) { $('#prunetree-leaf-count').fadeToggle(); $('#unresolved-names').fadeToggle(); } }); $('#unresolved-names').hide(); } else $('#prunetree-msg-container').html(''); $('#prunetree-tab').click(); $('#prunetree-tab').click(); hideModalProgress(); } catch(err) { var message = '<div class="wrap"><h3 class="error">Oh no! An error occurred: ' + err + '</h3></div>'; $('#prunetree-widget').html(message); $('#prunetree-tab').click(); $('#prunetree-tab').click(); hideModalProgress(); } }, error: function(data){ hideModalProgress(); } }); }); $('#pairwise-search-button1').click(function () { $('#pairwise_search').validate({ rules: { taxon_a: { required: true, maxlength: 1024 }, taxon_b: { required: true, maxlength: 1024 } } }); // end #pairwise-search }); $('#timetree-search-button1').click(function () { $('#timetree_search').validate({ rules: { timetree_taxon: { required: true, maxlength: 1024 } } }); }); $('#timeline-search-button1').click(function() { $('#timeline-search').validate({ rules: { timeline_taxon: { required: true, maxlength: 1024 } } }); }); function hideModalProgress() { waitingDialog.hide(); } var messageDialog = messageDialog || (function ($) { 'use strict'; // Creating modal dialog's DOM var $dialog = $( '<div class="modal fade" data-backdrop="static" data-keyboard="false" tabindex="-1" role="dialog" aria-hidden="true" style="padding-top:15%; overflow-y:visible;">' + '<div class="modal-dialog modal-m">' + '<div class="modal-content">' + '<div class="modal-header"><h3 style="margin:0;"></h3></div>' + '<div class="modal-body center">' + '<button id="message-dialog-button" class="button">Close</button>' + '</div>' + '</div></div></div>'); return { show: function (message, options) { // Assigning defaults if (typeof options === 'undefined') { options = {}; } if (typeof message === 'undefined') { message = 'Loading'; } var settings = $.extend({ dialogSize: 'm', progressType: '', onHide: null // This callback runs after the dialog was hidden }, options); // Configuring dialog $dialog.find('.modal-dialog').attr('class', 'modal-dialog').addClass('modal-' + settings.dialogSize); $dialog.find('#message-dialog-button').click(function() { $dialog.modal('hide'); }); $dialog.find('h3').text(message); // Adding callbacks if (typeof settings.onHide === 'function') { $dialog.off('hidden.bs.modal').on('hidden.bs.modal', function (e) { settings.onHide.call($dialog); }); } // Opening dialog $dialog.modal(); }, /** * Closes dialog */ hide: function () { $dialog.modal('hide'); } }; })(jQuery); var forward_url = ''; function onConfirmExitHidden() { var stay_or_leave = $('#stay-or-leave').attr('value'); if (stay_or_leave == 'leave') window.location.href = forward_url; } var confirmExitDlg = confirmExitDlg || (function ($) { 'use strict'; // Creating modal dialog's DOM var $dialog = $( '<div class="modal fade" data-backdrop="static" data-keyboard="false" tabindex="-1" role="dialog" aria-hidden="true" style="padding-top:15%; overflow-y:visible;">' + '<div class="modal-dialog modal-m">' + '<div class="modal-content">' + '<div class="modal-header"><h3 style="margin:0;"></h3></div>' + '<div class="modal-body center">' + '<button id="leave-button" class="button spaced-button">Leave</button>' + '<button id="stay-button" class="button spaced-button">Stay</button>' + '<input id="stay-or-leave" type="hidden" value="leave"/>' + '</div>' + '</div></div></div>'); return { show: function (message, options) { // Assigning defaults if (typeof options === 'undefined') { options = {}; } if (typeof message === 'undefined') { message = 'Loading'; } var settings = $.extend({ dialogSize: 'm', progressType: 'warning', onHide: onConfirmExitHidden // This callback runs after the dialog was hidden }, options); // Configuring dialog $dialog.find('.modal-dialog').attr('class', 'modal-dialog').addClass('modal-' + settings.dialogSize); $dialog.find('#leave-button').click(function() { $('#stay-or-leave').attr('value', 'leave'); $dialog.modal('hide'); }); $dialog.find('#stay-button').click(function(){ $('#stay-or-leave').attr('value', 'stay'); $dialog.modal('hide'); }); $dialog.find('h3').text(message); // Adding callbacks if (typeof settings.onHide === 'function') { $dialog.off('hidden.bs.modal').on('hidden.bs.modal', function (e) { settings.onHide.call($dialog); }); } // Opening dialog $dialog.modal(); }, /** * Closes dialog */ hide: function () { $dialog.modal('hide'); } }; })(jQuery); function userHasMadeChanges() { var text_inputs = $('input[type="text"]'); var result = false; text_inputs.each(function() { if ($(this).val().trim() !== '') { result = true; } }); return result; } function checkIfUserWantsToLeave() { var hasChanges = userHasMadeChanges(); if (hasChanges == true) { confirmExitDlg.show("You have attempted to leave this page. Any changes you have made will be lost. Are you sure you want to leave this page?"); } else { if (forward_url !== '') window.location.href = forward_url; } } $('#main-nav a').click(function(e){ e.preventDefault(); forward_url = $(this).attr('href'); checkIfUserWantsToLeave(); }); $('#logo-link a').click(function(e){ e.preventDefault(); forward_url = $(this).attr('href'); checkIfUserWantsToLeave(); }); // if (window.history && window.history.pushState) { // window.history.pushState('forward', null, './#forward'); // $(window).on('popstate', function(e) { // if ((document.referrer.indexOf(location.origin) >= 0)) { // e.preventDefault(); // forward_url = document.referrer; // checkIfUserWantsToLeave(); // } // }); // } </script> <script> (function(i,s,o,g,r,a,m){i['GoogleAnalyticsObject']=r;i[r]=i[r]||function(){ (i[r].q=i[r].q||[]).push(arguments)},i[r].l=1*new Date();a=s.createElement(o), m=s.getElementsByTagName(o)[0];a.async=1;a.src=g;m.parentNode.insertBefore(a,m) })(window,document,'script','//www.google-analytics.com/analytics.js','ga'); ga('create', 'UA-4210986-3', 'auto'); ga('send', 'pageview'); </script> </body> </html>

CINXE.COM

TimeTree :: The Timescale of Life