RRID | Searching in Community Resources

<!DOCTYPE html>    <html lang="en">  <head> <title>RRID | Searching in Community Resources</title>  <meta charset="utf-8"> <meta name="viewport" content="width=device-width, initial-scale=1.0"> <meta name="description" content="Results for the query '*' in resources across SciCrunch: Registry"> <meta name="author" content=""> <meta name="google-site-verification" content="vhe7FXQ5uQHNwM10raiS4rO23GgbFW6-iyRfapxGPJc" />  <link rel="shortcut icon" href="/favicon.ico">  <link rel="stylesheet" href="/css/main.css"> <link rel="stylesheet" href="/assets/plugins/bootstrap/css/bootstrap.min.css"> <link rel="stylesheet" href="/assets/plugins/sky-forms/version-2.0.1/css/custom-sky-forms.css"> <link rel="stylesheet" href="/assets/css/style.css">  <link rel="stylesheet" href="/assets/plugins/line-icons/line-icons.css"> <link rel="stylesheet" href="/assets/plugins/font-awesome/css/font-awesome.min.css"> <link rel="stylesheet" href="/assets/plugins/owl-carousel/owl-carousel/owl.carousel.css">  <link rel="stylesheet" href="/assets/css/pages/page_search_inner.css"> <link rel="stylesheet" href="/assets/css/pages/page_search_inner_tables.css"> <link rel="stylesheet" href="/assets/plugins/scrollbar/src/perfect-scrollbar.css">  <link rel="stylesheet" href="/assets/css/themes/default.css" id="style_color"> <link rel="stylesheet" href="/assets/css/pages/page_log_reg_v2.css"> <link rel="stylesheet" href="/assets/css/shop/shop.blocks.css">  <link rel="stylesheet" href="/assets/css/custom.css"> <link rel="stylesheet" href="/css/community-search.css"> <link rel="stylesheet" href="/css/joyride-2.0.3.css"> <link rel="stylesheet" href="/js/Highcharts-6.0.7/code/css/highcharts.css"> <script type="text/javascript" src="/assets/plugins/jquery-3.4.1.min.js"></script> <script type="text/javascript" src="/js/main.js"></script> <script src="/js/angular-1.7.9/angular.min.js"></script> <script src="/js/ui-bootstrap-tpls-2.5.0.min.js"></script> <script src="/js/angular-1.7.9/angular-sanitize.js"></script> <script src="/js/module-error.js"></script> <script src="/js/module-resource.js"></script>  <style> #loading { background: #F7F7FF; display: none; } .page-overlay { width: 100%; height: 100%; z-index: 1000; top: 0; left: 0; position: fixed; } #restarting-warning { background: #FFF7F7; display: none; } #try-again-later-warning { display: none; } .center-style-1 { display: table; position: absolute; height: 100%; width: 100%; } .center-style-2 { display: table-cell; vertical-align: middle; } .center-style-3 { margin-left: auto; margin-right: auto; } </style> <script> window.page_loaded = false; function pageLoad() { document.getElementById("loading").style.display = "none"; document.getElementById("full-page").style.display = "block"; window.page_loaded = window.okSearchStatus; clearTimeout(window.reloadTimeout); checkReloadSearchPage(); } function checkReloadSearchPage() { document.getElementById("loading").style.display = "none"; document.getElementById("full-page").style.display = "block"; if(!window.page_loaded) { if(window.location.search.indexOf("restarted") === -1) { document.getElementById("restarting-warning").style.display = "block"; setTimeout(function() { var sep = window.location.search.indexOf("?") === -1 ? "?" : "&"; // check if other get query params exist window.location = window.location.href + sep + "restarted"; }, 5000); } else { document.getElementById("try-again-later-warning").style.display = "block"; } } } window.reloadTimeout = setTimeout(checkReloadSearchPage, 65000); </script> </head> <body onload="pageLoad()"> <noscript> <div class="alert alert-danger"> This site relies heavily on JavaScript. Many functions will not work if you continue with JavaScript disabled. </div> </noscript> <div id="loading" class="page-overlay"> <div class="center-style-1"> <div class="center-style-2"> <div class="center-style-3"> <center> <h2>Searching across hundreds of databases <i class="fa fa-cog fa-spin"></i></h2> <img src="/images/scicrunch.png" style="height: 100px" /> </center> </div> </div> </div> </div> <div id="restarting-warning" class="page-overlay"> <div class="center-style-1"> <div class="center-style-2"> <div class="center-style-3"> <center> <h2>Our searching services are busy right now. Your search will reload in five seconds.</h2> </center> </div> </div> </div> </div> <div id="try-again-later-warning" class="alert alert-warning" role="alert"> Our searching services are busy right now. Please try again later. </div> <script>document.getElementById("loading").style.display = "block";</script> <div id="full-page"> <script>document.getElementById("full-page").style.display = "none";</script> <script> window.okSearchStatus = true</script> <div class="wrapper-background" style="overflow:auto ">  <style> .header .navbar-default .navbar-nav > li > a:hover, .header .navbar-default .navbar-nav > .active > a { color: #0095FE; border-bottom: solid 2px #0095FE; } .header .dropdown-menu { border-top: solid 2px #0095FE; } .header .navbar .nav > li > .search:hover { color: #0095FE; background: #f7f7f7; border-bottom-color: #0095FE; } .topbar .loginbar li a:hover { color: #0095FE; } .header .btn-u { background: #0095FE; } .header .btn-u:hover { background: #0095FE; } .header .container > .navbar-header, .header .container-fluid > .navbar-header, .header .container > .navbar-collapse, .header .container-fluid > .navbar-collapse { margin-bottom: -30px; } </style> <div class="header-v1" style="z-index:99"> <div class="topbar-v1 margin-bottom-20" > <div class="container"> <div class="row"> <div class="col-md-6"> </div> <div class="col-md-6"> <ul class="list-unstyled top-v1-data"> <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-34153437-1', 'auto'); // scicrunch ga('create', '', 'auto', 'community'); // community ga('send', 'pageview'); ga('community.send', 'pageview'); </script>  <script async src="https://www.googletagmanager.com/gtag/js?id=G-0347ER9L11"></script> <script> window.dataLayer = window.dataLayer || []; function gtag(){dataLayer.push(arguments);} gtag('js', new Date()); gtag('config', 'G-0347ER9L11'); </script> <li><a href="#" class="btn-login">Login</a></li> <li><a class="referer-link" href="/resources/join">Register</a></li>  </ul> </div> </div> </div> </div> </div> <div class="header ">  <div class="topbar"> <div class="container">   </div> </div>   <div class="navbar navbar-default" role="navigation" style="margin-bottom: 20px;"> <div class="container">  <div class="navbar-header"> <a class="navbar-brand" href="/resources"> <img class="community-logo" src="/upload/community-logo/rin-resources_69984.png"/> <span class="community-name">RRID Portal</span> </a> </div>  <div> <ul class="nav navbar-nav">  <li class="active dropdown"> <a href="javascript:void(0)" class="dropdown-toggle joyride-about" data-toggle="dropdown">About</a> <ul class="dropdown-menu"> <li><a href="/resources/about/Getting Started" target="_blank">Getting Started</a></li><li><a href="/resources/about/tips" target="_blank">Search Features and Tips</a></li><li><a href="/resources/about/guidelines" target="_blank">Resource Citation Guidelines</a></li><li><a href="/resources/about/community_authorities" target="_blank">Community Standard Authorities</a></li><li><a href="/resources/about/faqs" target="_blank">FAQs and Tutorials</a></li><li><a href="/resources/about/scibot" target="_blank">SciBot</a></li> <li ><a href="/resources/about/resource">Add a Resource</a></li> </ul> </li>    </ul> </div>  </div> </div>  </div>  <div class="container login-backing" style="display:none;position: fixed;left:0;top:0;width:100%;height:100%;z-index: 20000;background: rgba(0,0,0,.8)">  <form method="post" action="/forms/login.php?cid=510"> <div class="reg-block login-box"> <div class="login-backing close dark">X</div> <div class="reg-block-header"> <h2>Log in</h2> </div> <div class="input-group margin-bottom-20"> <span class="input-group-addon"><i class="fa fa-envelope"></i></span> <input type="text" class="form-control" name="email" placeholder="Email"> </div> <div class="input-group margin-bottom-20"> <span class="input-group-addon"><i class="fa fa-lock"></i></span> <input type="password" class="form-control" name="password" placeholder="Password"> </div> <a class="referer-link" href="/resources/join">Create an account</a><br/> <span class="simple-toggle login-backing" modal=".forgot-password" style="cursor:pointer;color:#72c02c" title="Forgot Password">Forgot password?</span><br/> <hr> <div class="row"> <div class="col-md-10 col-md-offset-1"> <button type="submit" class="btn-u btn-block">Log In</button> </div> </div> </div> </form>  </div> <div class="back-hide forgot-password no-padding"> <div class="close dark less-right">X</div> <div id="sky-form4" class="sky-form" novalidate="novalidate"> <header>Forgot Password</header> <fieldset> <p> If you have forgotten your password you can enter your email here and get a temporary password sent to your email. <div class="forgot-pw-container"> <form class="forgot-pw-form"> <div class="input-group"> <input type="text" class="form-control forgot-email" name="query" placeholder="Account Email"/> <span class="input-group-btn"> <button class="btn-u" type="submit">Send</button> </span> </div> </form> </div> </p> </fieldset> </div> </div> <div class="large-modal back-hide leave-comm"> <div class="close dark less-right">X</div> <h2>Leaving Community</h2> <p style="margin:20px 0"> Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community. </p> <div class="btn-u btn-u-default close-btn">No</div> <a class="btn-u btn-u-red" href="/forms/leave.php?cid=510">Yes</a> </div> <ol id="joyRideHeaderContent" style="display:none"> <li data-class="joyride-about" data-text="Next" data-options="tipLocation:bottom;tipAnimation:fade"> <h2>About</h2> <p> Find out information about this community and visit other pages within it. You can also add a resource to the community here. </p> </li> <li data-class="joyride-community-resources" data-text="Next" data-options="tipLocation:bottom;tipAnimation:fade"> <h2>Community Resources</h2> <p> Search through data specific to this community </p> </li> <li data-class="joyride-more-resources" data-text="Next" data-options="tipLocation:bottom;tipAnimation:fade"> <h2>More Resources</h2> <p> Search through all of SciCrunch's data. </p> </li> <li data-class="joyride-literature" data-text="Next" data-options="tipLocation:bottom;tipAnimation:fade"> <h2>Literature</h2> <p> Search through literature data. </p> </li> </ol> <script type="text/javascript"> $(function() { $(".tutorial-header-btn").click(function () { $("body").joyride(); $("body").joyride("destroy"); // joyride bug, when multiple joyrides on a page $(".joyride-next-tip").show(); $("#joyRideHeaderContent").joyride( { "postStepCallback": function(index, tip) { }, "startOffset": 0, "tip_class": false, } ); }); }); </script> <div class="container login-backing" style="display:none;position: fixed;left:0;top:0;width:100%;height:100%;z-index: 20000;background: rgba(0,0,0,.8)">  <form method="post" action="/forms/login.php?cid=510"> <div class="reg-block login-box"> <div class="login-backing close dark">X</div> <div class="reg-block-header"> <h2>Log in</h2> </div> <div class="input-group margin-bottom-20"> <span class="input-group-addon"><i class="fa fa-envelope"></i></span> <input type="text" class="form-control" name="email" placeholder="Email"> </div> <div class="input-group margin-bottom-20"> <span class="input-group-addon"><i class="fa fa-lock"></i></span> <input type="password" class="form-control" name="password" placeholder="Password"> </div> <a class="referer-link" href="/resources/join">Create an account</a><br/> <span class="simple-toggle login-backing" modal=".forgot-password" style="cursor:pointer;color:#72c02c" title="Forgot Password">Forgot password?</span><br/> <hr> <div class="row"> <div class="col-md-10 col-md-offset-1"> <button type="submit" class="btn-u btn-block">Log In</button> </div> </div> </div> </form>  </div> <div class="back-hide forgot-password no-padding"> <div class="close dark less-right">X</div> <div id="sky-form4" class="sky-form" novalidate="novalidate"> <header>Forgot Password</header> <fieldset> <p> If you have forgotten your password you can enter your email here and get a temporary password sent to your email. <div class="forgot-pw-container"> <form class="forgot-pw-form"> <div class="input-group"> <input type="text" class="form-control forgot-email" name="query" placeholder="Account Email"/> <span class="input-group-btn"> <button class="btn-u" type="submit">Send</button> </span> </div> </form> </div> </p> </fieldset> </div> </div> <script type="text/javascript" src="/js/facets-wordcloud30.js"></script> <script> document.categoryGraphData = null; </script> <link href="/css/rin.css" rel="stylesheet" /> <div class="rin"> <div class="report"> <div class="header-scicrunch"> <div class="container"> <div class="row"> <div> <h1 style="margin-top:10px"> Tools  <a target='_self' href='https://rrid.site/rin/rrids' class='btn btn-primary'><i class='fa fa-bars'></i> Select Another Resource Report Type</a> </h1> <ol class="breadcrumb"> <li> <a class="color-white " target="_self" href="https://rrid.site" > Home </a> </li> <li> <a class="color-white " target="_self" href="https://rrid.site/rin/rrids" > Resource Reports </a> </li> <li> <a class="color-white active" target="_self" > Tools </a> </li> </ol> </div> </div> </div> </div> <div class="header-background-resolver"></div> <div class="row"> <div class="container"> <div class="wrapper"> <div class="row"> <div class="col-md-12"> <div> <div class="row"> <div class="col-md-12"> <p style="margin-bottom: 0px" class="truncate-medium" id="sc-descr"><a href="https://scicrunch.org/scicrunch/about/sources/nlx_144509-1">SciCrunch Registry</a> is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to <a href="https://scicrunch.org/create/resource">register your resource</a>.</p> </div> <div class="col-md-12 results-number" style="margin-top:10px;"> <style> .search-block-v2 h2 { color: #585f69; } .search-block-v2 .form-submit-button { background: #0095FE; } .search-block-save-search-btn { background: #9B6BCC; color: #FFF; border-radius: 0; } .search-block-reset-search-btn { background-color: #408DC9; color: white; border-radius: 0; } </style> <div class="search-block-v2 " style="margin-bottom:10px"> <div class="container"> <div> <form class="page-search-form1 submit-class"> <div> <p class="search-section-header" style="display: inline-block">Search</p> <p style="display: inline-block">Type in a keyword to search</p> </div> <div class="input-group"> <span class="input-group-btn"> <div class="btn btn-info help-tooltip-btn" data-name="rin-search-tips.html"> <i class="fa fa-question-circle"></i> </div> </span> <input type="text" class="form-control searchbar" id="search-banner-input" name="l" value="*"> <input type="hidden" id="autoValues"/> <input type="hidden" class="title-input" value=""/> <input type="hidden" class="type-input" value="search"/> <input type="hidden" class="category-input" value="data"/> <input type="hidden" class="subcategory-input" value=""/> <input type="hidden" class="source-input" value="nlx_144509-1"/> <input type="hidden" class="search-community" value="resources"/> <input type="hidden" class="stripped-community" value=""/> <input type="hidden" class="data-sources" value=""/> <input type="hidden" class="results-types" value=""/> <div class="autocomplete_append auto" style="z-index:10"></div> <span class="input-group-btn"> <input type="submit" class="btn-u form-submit-button" type="button" value="Search" style="height:34px;" /> </span>  <span class="input-group-btn"> <div class="btn-group tut-saved" style="margin-left:20px"> <button type="button" class="btn dropdown-toggle search-block-save-search-btn" data-toggle="dropdown" title="Save your search to receive notifications when there are updates"> <i class="fa fa-floppy-o"></i> Save search </button> <ul class="dropdown-menu" role="menu" style="text-align: left"> <li><a href="javascript:void(0)" class="btn-login">Login to Save Searches</a></li> </ul> </div> <div class="btn-group tut-saved" style="margin-left:10px"> <a target="_self" href="https://rrid.site/data/source/nlx_144509-1/search?q=&l=" class="btn search-block-reset-search-btn"> <i class="fa fa-undo"></i> Reset search </a> </div> </span> </div> </form> </div> </div> </div> <script> $(function(){ var synonyms_checked_flag = false; var synonyms = "true"; if(synonyms == "true") synonyms_checked_flag = true; $('#ScheckBox').prop('checked', synonyms_checked_flag || false); }); $('#ScheckBox').on('change', function() { localStorage.checked = $(this).is(':checked'); if(localStorage.checked == "true") window.location = window.location.href.replace("&exclude=synonyms", ""); else window.location = window.location.href.replace("#", "&exclude=synonyms#"); }); $(function(){ var acronyms_checked_flag = false; var acronyms = "false"; if(acronyms == "true") acronyms_checked_flag = true; $('#AcheckBox').prop('checked', acronyms_checked_flag || false); }); $('#AcheckBox').on('change', function() { localStorage.checked = $(this).is(':checked'); if(localStorage.checked == "true") window.location = window.location.href.replace("#", "&include=acronyms#"); else window.location = window.location.href.replace("&include=acronyms", ""); }); </script> </div> </div> <div class="row"> <div class="col-md-2 hidden-xs related-search"> <div class="row" style="margin-top:10px"> <div class="col-md-12 col-sm-4"> <a href="javascript:void(0)" class="hidden-default-toggle"> Filter by records added date</a> <div class="hidden-default"> <input id="modified-date-picker30" style="color:black" /> <div class="btn-group"> <a href="javascript:void(0)" id="modified-date-picker-before"><button class="btn btn-default">Before</button></a> <a href="javascript:void(0)" id="modified-date-picker-after"><button class="btn btn-default">After</button></a> </div> </div> <style> .hidden-default { display: none; } </style> <script> $(function() { $("#modified-date-picker30").datepicker(); function modifiedDatePicker(action) { var time = $("#modified-date-picker30").datepicker("getDate"); time = $.datepicker.formatDate("yymmdd", time); if(time == "") return; var query = window.location.search.replace(/filter\[\]=(gte|lte):\d+&?/gi, "") .replace(/filter\[\]=(gte|lte):/gi, ""); if(query.includes("&changed")){ query = query.replace(/facet\[\]=([a-z|0-9|%]+)&?/gi, ""); query = query.replace("&changed", ""); } var path = window.location.pathname.replace(/page\/\d+\/search/, "search"); var fullpath = path + query; var query_delim = "&"; if(window.location.search === "") { query_delim = "?"; } var modified_fullpath = fullpath + query_delim + "filter[]=" + action + ":" + time; modified_fullpath = modified_fullpath.replace("&&", "&") .replace("?&", "?"); window.location.href = modified_fullpath; } $("#modified-date-picker-before").click(function() { modifiedDatePicker("lte"); }); $("#modified-date-picker-after").click(function() { modifiedDatePicker("gte"); }); $(".hidden-default-toggle").click(function() { $(".hidden-default").slideToggle(); }); }); </script> <br/> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&filter[]=gte:20241104">See new records</a> <hr /> <h3>Options</h3> <ul class="list-group"> <li class="list-group-item"><a href="#" class="btn-login">Log in for Collection Options</a></li> </ul> <hr class="hr-small" /> <h3>Current Facets and Filters</h3><ul class="list-unstyled"><li>Keywords:analysis (facet)<a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software"><i class="fa red-x fa-times-circle"></i></a></li><li>Funding Agency:nhgri (facet)<a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software"><i class="fa red-x fa-times-circle"></i></a></li><li>Funding Agency:bergen research foundation (facet)<a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Resource%20Type%3Asequence%20analysis%20software"><i class="fa red-x fa-times-circle"></i></a></li><li>Resource Type:sequence analysis software (facet)<a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20"><i class="fa red-x fa-times-circle"></i></a></li></ul><hr style="margin-top:10px;margin-bottom:15px;"/> <div> <h3>Facets</h3> <form class="multi-facets" url="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software"> <ul class="list-group sidebar-nav-v1" id="sidebar-nav"> <li class="list-group-item list-toggle" data-toggle="collapse" data-parent="#sidebar-nav" href="#collapse-Resource_Type"> <a href="javascript:void(0)">Resource Type</a> <ul id="collapse-Resource_Type" class="collapse"> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Resource%20Type%3Adata%20analysis%20software" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="9" title="data analysis software"> data analysis softwa... (9) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Resource%20Type" facet="data%20analysis%20software" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Resource%20Type%3Adata%20processing%20software" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="9" title="data processing software"> data processing soft... (9) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Resource%20Type" facet="data%20processing%20software" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a> sequence analysis so... (9) </a> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Resource%20Type%3Asoftware%20application" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="9" title="software application"> software application (9) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Resource%20Type" facet="software%20application" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Resource%20Type%3Asoftware%20resource" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="9" title="software resource"> software resource (9) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Resource%20Type" facet="software%20resource" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Resource%20Type%3Aalignment%20software" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="3" title="alignment software"> alignment software (3) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Resource%20Type" facet="alignment%20software" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Resource%20Type%3Aimage%20analysis%20software" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="3" title="image analysis software"> image analysis softw... (3) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Resource%20Type" facet="image%20analysis%20software" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Resource%20Type%3Asoftware%20toolkit" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="1" title="software toolkit"> software toolkit (1) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Resource%20Type" facet="software%20toolkit" /> </div> </div> </li> </ul> </li> <li class="list-group-item list-toggle" data-toggle="collapse" data-parent="#sidebar-nav" href="#collapse-Keywords"> <a href="javascript:void(0)">Keywords</a> <ul id="collapse-Keywords" class="collapse"> <li style="border-top: 1px solid #ddd"> <a> analysis (9) </a> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Asequence" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="6" title="sequence"> sequence (6) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="sequence" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Abio.tools" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="5" title="bio.tools"> bio.tools (5) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="bio.tools" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Aread" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="4" title="read"> read (4) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="read" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Arna" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="4" title="rna"> rna (4) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="rna" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Aalignment" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="3" title="alignment"> alignment (3) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="alignment" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Adna" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="3" title="dna"> dna (3) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="dna" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Agenome" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="3" title="genome"> genome (3) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="genome" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Areference" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="3" title="reference"> reference (3) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="reference" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Asequencing" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="3" title="sequencing"> sequencing (3) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="sequencing" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Aend" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="2" title="end"> end (2) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="end" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Agap" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="2" title="gap"> gap (2) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="gap" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Agene" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="2" title="gene"> gene (2) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="gene" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Alocal" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="2" title="local"> local (2) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="local" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Along" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="2" title="long"> long (2) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="long" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Apair" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="2" title="pair"> pair (2) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="pair" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&facet[]=Keywords%3Arnaseq" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="2" title="rnaseq"> rnaseq (2) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Keywords" facet="rnaseq" /> </div> </div> </li> <li style="border-top: 1px solid #ddd"> <a 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Register it with the聽SciCrunch Registry.聽An RRID will be generated in 1-2 business day.</button></a> </h4> </div> </div> <div class="cant-find-rrid-bottom"> <div class="open"> Can't find the RRID you're searching for? <span class="close-button">X</span> </div> <div class="closed"> </div> </div> </div> <script> $(function() { $(".cant-find-rrid-bottom .open .close-button").on("click", function(event) { $(this).parent().parent().find(".open").hide(); $(this).parent().parent().find(".closed").show(); event.stopPropagation(); }); $(".cant-find-rrid-bottom .closed").on("click", function() { }); $(".cant-find-rrid-bottom .open").on("click", function() { $("html, body").animate({scrollTop: $("#cant-find-rrid").offset().top}, 500); }); $(".cant-find-rrid-bottom").on("click", function() { if($(this).find(".open").is(":visible")) { $("html, body").animate({scrollTop: $("#cant-find-rrid").offset().top}, 500); } else { $(this).find(".open").show(); $(this).find(".close").hide(); } }); }) </script> </div> </div> <div class="row"> <div class="col-md-9"> <div class="panel panel-default"> <div class="panel-heading" style="text-align: center; font-size: 14px">Click the <i class="fa fa-square-o" aria-hidden="true"></i> to add this resource to a Collection</div> </div> </div> </div> <div class="inner-results"> <div class="the-title"> <ul class="list-inline up-ul" style="margin:7px 0"> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> <i title="Log In to Use Collections" class="icon-sm fa fa-square-o btn-login" style="cursor:pointer"></i> </span> </li> <h3 style="display:inline-block; text-transform:none"> <div><a href="https://rrid.site/data/record/nlx_144509-1/SCR_005476/resolver?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&i=rrid:scr_005476">Bowtie <i class="fa fa-file-o"></i></a></div> </h3> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> </span> </li> <h4> RRID:SCR_005476 </h4> <span class="fa-stack fa-md"> <i class="fa fa-circle fa-stack-2x" style="color:#666767"></i> <i class="fa fa-line-chart fa-stack-1x fa-inverse"></i> </span> This resource has 10000+ mentions. <a target="_self" href="/php/download-rin-rrid-mentions.php?viewid=nlx_144509-1&rrid=RRID:SCR_005476&tab=mentions&mode=all"><i class="fa fa-download" title="Download Mentions"></i></a> <span class="help-tooltip" data-name="mention-definition.html"></span>  </ul> </div>  <p><a target="_blank" href="http://bowtie-bio.sourceforge.net/index.shtml">http://bowtie-bio.sourceforge.net/index.shtml <i class='fa fa-external-link'></i></a></p> <p>Software ultrafast memory efficient tool for aligning sequencing reads. Bowtie is short read aligner.</p> <p></p> <p> <strong>Proper citation:</strong> Bowtie (RRID:SCR_005476) <a href="javascript:void(0)" onclick="copyTextToClipboard('Bowtie (RRID:SCR_005476)', 'rrid:scr_005476')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005476" class="copy-alert" style="text-align: center; width:120px; display:none"></span> </p> <ul class="list-inline up-ul"> <li> <i class="fa fa-info"></i>   Source: <a href='https://rrid.site/rin/sources/SCR_005400' target='_blank'>SciCrunch Registry</a> </li> </ul> </div> <hr/> <div class="inner-results"> <div class="the-title"> <ul class="list-inline up-ul" style="margin:7px 0"> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> <i title="Log In to Use Collections" class="icon-sm fa fa-square-o btn-login" style="cursor:pointer"></i> </span> </li> <h3 style="display:inline-block; text-transform:none"> <div><a href="https://rrid.site/data/record/nlx_144509-1/SCR_013035/resolver?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&i=rrid:scr_013035">TopHat <i class="fa fa-file-o"></i></a></div> </h3> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> </span> </li> <h4> RRID:SCR_013035 </h4> <span class="fa-stack fa-md"> <i class="fa fa-circle fa-stack-2x" style="color:#666767"></i> <i class="fa fa-line-chart fa-stack-1x fa-inverse"></i> </span> This resource has 5000+ mentions. <a target="_self" href="/php/download-rin-rrid-mentions.php?viewid=nlx_144509-1&rrid=RRID:SCR_013035&tab=mentions&mode=all"><i class="fa fa-download" title="Download Mentions"></i></a> <span class="help-tooltip" data-name="mention-definition.html"></span>  </ul> </div>  <p><a target="_blank" href="http://ccb.jhu.edu/software/tophat/index.shtml">http://ccb.jhu.edu/software/tophat/index.shtml <i class='fa fa-external-link'></i></a></p> <p>Software tool for fast and high throughput alignment of shotgun cDNA sequencing reads generated by transcriptomics technologies. Fast splice junction mapper for RNA-Seq reads. Aligns RNA-Seq reads to mammalian-sized genomes using ultra high-throughput short read aligner Bowtie, and then analyzes mapping results to identify splice junctions between exons.TopHat2 is accurate alignment of transcriptomes in presence of insertions, deletions and gene fusions.</p> <p></p> <p> <strong>Proper citation:</strong> TopHat (RRID:SCR_013035) <a href="javascript:void(0)" onclick="copyTextToClipboard('TopHat (RRID:SCR_013035)', 'rrid:scr_013035')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_013035" class="copy-alert" style="text-align: center; width:120px; display:none"></span> </p> <ul class="list-inline up-ul"> <li> <i class="fa fa-info"></i>   Source: <a href='https://rrid.site/rin/sources/SCR_005400' target='_blank'>SciCrunch Registry</a> </li> </ul> </div> <hr/> <div class="inner-results"> <div class="the-title"> <ul class="list-inline up-ul" style="margin:7px 0"> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> <i title="Log In to Use Collections" class="icon-sm fa fa-square-o btn-login" style="cursor:pointer"></i> </span> </li> <h3 style="display:inline-block; text-transform:none"> <div><a href="https://rrid.site/data/record/nlx_144509-1/SCR_016652/resolver?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&i=rrid:scr_016652">fermi <i class="fa fa-file-o"></i></a></div> </h3> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> </span> </li> <h4> RRID:SCR_016652 </h4> </ul> </div>  <p><a target="_blank" href="https://github.com/lh3/fermi">https://github.com/lh3/fermi <i class='fa fa-external-link'></i></a></p> <p>Software assembler and analysis tool for whole-genome short-gun sequencing for Illumina reads. Provides tools for error correction, sequence-to-read alignment and comparison between read sets. Used for large genomes.</p> <p></p> <p> <strong>Proper citation:</strong> fermi (RRID:SCR_016652) <a href="javascript:void(0)" onclick="copyTextToClipboard('fermi (RRID:SCR_016652)', 'rrid:scr_016652')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_016652" class="copy-alert" style="text-align: center; width:120px; display:none"></span> </p> <ul class="list-inline up-ul"> <li> <i class="fa fa-info"></i>   Source: <a href='https://rrid.site/rin/sources/SCR_005400' target='_blank'>SciCrunch Registry</a> </li> </ul> </div> <hr/> <div class="inner-results"> <div class="the-title"> <ul class="list-inline up-ul" style="margin:7px 0"> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> <i title="Log In to Use Collections" class="icon-sm fa fa-square-o btn-login" style="cursor:pointer"></i> </span> </li> <h3 style="display:inline-block; text-transform:none"> <div><a href="https://rrid.site/data/record/nlx_144509-1/SCR_016665/resolver?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&i=rrid:scr_016665">Centrifuge Classifier <i class="fa fa-file-o"></i></a></div> </h3> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> </span> </li> <h4> RRID:SCR_016665 </h4> <span class="fa-stack fa-md"> <i class="fa fa-circle fa-stack-2x" style="color:#666767"></i> <i class="fa fa-line-chart fa-stack-1x fa-inverse"></i> </span> This resource has 1+ mentions. <a target="_self" href="/php/download-rin-rrid-mentions.php?viewid=nlx_144509-1&rrid=RRID:SCR_016665&tab=mentions&mode=all"><i class="fa fa-download" title="Download Mentions"></i></a> <span class="help-tooltip" data-name="mention-definition.html"></span>  </ul> </div>  <p><a target="_blank" href="http://www.ccb.jhu.edu/software/centrifuge/">http://www.ccb.jhu.edu/software/centrifuge/ <i class='fa fa-external-link'></i></a></p> <p>Software for rapid and sensitive classification of metagenomic sequences. Used for the classification of DNA sequences from microbial samples and analysis of large metagenomics data sets on conventional desktop computers.</p> <p></p> <p> <strong>Proper citation:</strong> Centrifuge Classifier (RRID:SCR_016665) <a href="javascript:void(0)" onclick="copyTextToClipboard('Centrifuge Classifier (RRID:SCR_016665)', 'rrid:scr_016665')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_016665" class="copy-alert" style="text-align: center; width:120px; display:none"></span> </p> <ul class="list-inline up-ul"> <li> <i class="fa fa-info"></i>   Source: <a href='https://rrid.site/rin/sources/SCR_005400' target='_blank'>SciCrunch Registry</a> </li> </ul> </div> <hr/> <div class="inner-results"> <div class="the-title"> <ul class="list-inline up-ul" style="margin:7px 0"> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> <i title="Log In to Use Collections" class="icon-sm fa fa-square-o btn-login" style="cursor:pointer"></i> </span> </li> <h3 style="display:inline-block; text-transform:none"> <div><a href="https://rrid.site/data/record/nlx_144509-1/SCR_006873/resolver?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&i=rrid:scr_006873">eXpress <i class="fa fa-file-o"></i></a></div> </h3> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> </span> </li> <h4> RRID:SCR_006873 </h4> <span class="fa-stack fa-md"> <i class="fa fa-circle fa-stack-2x" style="color:#666767"></i> <i class="fa fa-line-chart fa-stack-1x fa-inverse"></i> </span> This resource has 100+ mentions. <a target="_self" href="/php/download-rin-rrid-mentions.php?viewid=nlx_144509-1&rrid=RRID:SCR_006873&tab=mentions&mode=all"><i class="fa fa-download" title="Download Mentions"></i></a> <span class="help-tooltip" data-name="mention-definition.html"></span>  </ul> </div>  <p><a target="_blank" href="http://bio.math.berkeley.edu/eXpress/index.html">http://bio.math.berkeley.edu/eXpress/index.html <i class='fa fa-external-link'></i></a></p> <p>THIS RESOURCE IS NO LONGER IN SERVICE. Documented January 29, 2018.<br/>From website: "Note that the eXpress software is also no longer being developed. We recommend you use kallisto instead." Kallisto can be found at http://pachterlab.github.io/kallisto/.<br/><br/>Software for streaming quantification for high-throughput DNA/RNA sequencing. <br/>Can be used in any application where abundances of target sequences need to be estimated from short reads sequenced from them.</p> <p></p> <p> <strong>Proper citation:</strong> eXpress (RRID:SCR_006873) <a href="javascript:void(0)" onclick="copyTextToClipboard('eXpress (RRID:SCR_006873)', 'rrid:scr_006873')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_006873" class="copy-alert" style="text-align: center; width:120px; display:none"></span> </p> <ul class="list-inline up-ul"> <li> <i class="fa fa-info"></i>   Source: <a href='https://rrid.site/rin/sources/SCR_005400' target='_blank'>SciCrunch Registry</a> </li> </ul> </div> <hr/> <div class="inner-results"> <div class="the-title"> <ul class="list-inline up-ul" style="margin:7px 0"> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> <i title="Log In to Use Collections" class="icon-sm fa fa-square-o btn-login" style="cursor:pointer"></i> </span> </li> <h3 style="display:inline-block; text-transform:none"> <div><a href="https://rrid.site/data/record/nlx_144509-1/SCR_016368/resolver?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&i=rrid:scr_016368">Bowtie 2 <i class="fa fa-file-o"></i></a></div> </h3> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> </span> </li> <h4> RRID:SCR_016368 </h4> <span class="fa-stack fa-md"> <i class="fa fa-circle fa-stack-2x" style="color:#666767"></i> <i class="fa fa-line-chart fa-stack-1x fa-inverse"></i> </span> This resource has 1000+ mentions. <a target="_self" href="/php/download-rin-rrid-mentions.php?viewid=nlx_144509-1&rrid=RRID:SCR_016368&tab=mentions&mode=all"><i class="fa fa-download" title="Download Mentions"></i></a> <span class="help-tooltip" data-name="mention-definition.html"></span>  </ul> </div>  <p><a target="_blank" href="http://bowtie-bio.sourceforge.net/bowtie2/index.shtml">http://bowtie-bio.sourceforge.net/bowtie2/index.shtml <i class='fa fa-external-link'></i></a></p> <p>Ultrafast and memory efficient tool for aligning sequencing reads to long reference sequences. Supports gapped, local, and paired end alignment modes. More suited to finding longer, gapped alignments in comparison with original Bowtie method.</p> <p></p> <p> <strong>Proper citation:</strong> Bowtie 2 (RRID:SCR_016368) <a href="javascript:void(0)" onclick="copyTextToClipboard('Bowtie 2 (RRID:SCR_016368)', 'rrid:scr_016368')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_016368" class="copy-alert" style="text-align: center; width:120px; display:none"></span> </p> <ul class="list-inline up-ul"> <li> <i class="fa fa-info"></i>   Source: <a href='https://rrid.site/rin/sources/SCR_005400' target='_blank'>SciCrunch Registry</a> </li> </ul> </div> <hr/> <div class="inner-results"> <div class="the-title"> <ul class="list-inline up-ul" style="margin:7px 0"> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> <i title="Log In to Use Collections" class="icon-sm fa fa-square-o btn-login" style="cursor:pointer"></i> </span> </li> <h3 style="display:inline-block; text-transform:none"> <div><a href="https://rrid.site/data/record/nlx_144509-1/SCR_000667/resolver?q=%2A&l=&facet[]=Keywords%3Aanalysis&facet[]=Funding%20Agency%3Anhgri%20&facet[]=Funding%20Agency%3Abergen%20research%20foundation%20&facet[]=Resource%20Type%3Asequence%20analysis%20software&i=rrid:scr_000667">MEGA <i class="fa fa-file-o"></i></a></div> </h3> <li class="body-hide"> <style> .in-collection { color: green; } </style> <span class="coll-li"> </span> </li> <h4> RRID:SCR_000667 </h4> <span class="fa-stack fa-md"> <i class="fa fa-circle fa-stack-2x" style="color:#666767"></i> <i class="fa fa-line-chart fa-stack-1x fa-inverse"></i> </span> This resource has 1000+ mentions. <a target="_self" href="/php/download-rin-rrid-mentions.php?viewid=nlx_144509-1&rrid=RRID:SCR_000667&tab=mentions&mode=all"><i class="fa fa-download" title="Download Mentions"></i></a> <span class="help-tooltip" data-name="mention-definition.html"></span>  </ul> </div>  <p><a target="_blank" href="http://megasoftware.net/">http://megasoftware.net/ <i class='fa fa-external-link'></i></a></p> <p>Software integrated tool for conducting automatic and manual sequence alignment, inferring phylogenetic trees, mining web based databases, estimating rates of molecular evolution, and testing evolutionary hypotheses. Used for comparative analysis of DNA and protein sequences to infer molecular evolutionary patterns of genes, genomes, and species over time. MEGA version 4 expands on existing facilities for editing DNA sequence data from autosequencers, mining Web-databases, performing automatic and manual sequence alignment, analyzing sequence alignments to estimate evolutionary distances, inferring phylogenetic trees, and testing evolutionary hypotheses. 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