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=&filter[]=gte:20241101">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" /> <div> <h3>Facets</h3> <form class="multi-facets" url="https://rrid.site/data/source/nlx_144509-1/page/3/search?q=%2A&l="> <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[]=Resource%20Type%3Asoftware%20resource" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="9087" title="software resource"> software resource (9,087) </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[]=Resource%20Type%3Adata%20or%20information%20resource" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="6859" title="data or information resource"> data or information ... (6,859) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Resource%20Type" facet="data%20or%20information%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[]=Resource%20Type%3Aservice%20resource" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="5014" title="service resource"> service resource (5,014) </a> <div class="pull-right"> <div class="checkbox"> <input type="checkbox" class="facet-checkbox" style="margin-top: 9px" column="Resource%20Type" facet="service%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[]=Resource%20Type%3Asoftware%20application" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="4733" title="software application"> software application (4,733) </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[]=Resource%20Type%3Adata%20processing%20software" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="3042" title="data processing software"> data processing soft... (3,042) </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 href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=&facet[]=Resource%20Type%3Aaccess%20service%20resource" style="width:90%;padding-right:30px;display:inline-block;border:0" data-count="3032" title="access service resource"> access service resou... 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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_005052/resolver?q=%2A&l=&i=rrid:scr_005052">HPC-CLUST <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_005052 </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_005052&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://meringlab.org/software/hpc-clust/">http://meringlab.org/software/hpc-clust/ <i class='fa fa-external-link'></i></a></p> <p>A set of tools designed to cluster large numbers (>1 million) of pre-aligned nucleotide sequences. It performs the clustering of sequences using the Hierarchical Clustering Algorithm (HCA). There are currently three different cluster metrics implemented: single-linkage, complete-linkage, and average-linkage. In addition, there are currently four sequence distance functions implemented, these are: identity (gap-gap counting as match), nogap (gap-gap being ignored), nogap-single (like nogap, but consecutive gap-nogap''s count as a single mismatch), tamura (distance is calculated with the knowledge that transitions are more likely than transversions). One advantage that HCA has over other algorithms is that instead of producing only the clustering at a given threshold, it produces the set of merges occuring at each threshold. With this approach, the clusters can afterwards very quickly be reported for every arbitrary threshold with little extra computation. This approach also allows the plotting of the variation of number of clusters with clustering threshold without requiring the clustering to be run for each threshold independently. Another feature of the way HPC-CLUST is implemented is that the single-, complete-, and average-linkage clusterings can be computed in a single run with little overhead.</p> <p></p> <p> <strong>Proper citation:</strong> HPC-CLUST (RRID:SCR_005052) <a href="javascript:void(0)" onclick="copyTextToClipboard('HPC-CLUST (RRID:SCR_005052)', 'rrid:scr_005052')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005052" 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_004995/resolver?q=%2A&l=&i=rrid:scr_004995">M-pick <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_004995 </h4> </ul> </div>  <p><a target="_blank" href="http://plaza.ufl.edu/xywang/Mpick.htm">http://plaza.ufl.edu/xywang/Mpick.htm <i class='fa fa-external-link'></i></a></p> <p>A modularity-based clustering software for Operational Taxonomic Unit (OTU) picking of 16S rRNA sequences. The algorithm does not require a predetermined cut-off level, and our simulation studies suggest that it is superior to existing methods that require specified distance or variance levels to define OTUs.</p> <p></p> <p> <strong>Proper citation:</strong> M-pick (RRID:SCR_004995) <a href="javascript:void(0)" onclick="copyTextToClipboard('M-pick (RRID:SCR_004995)', 'rrid:scr_004995')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_004995" 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_004996/resolver?q=%2A&l=&i=rrid:scr_004996">University of Manchester; Manchester; United Kingdom <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_004996 </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_004996&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.manchester.ac.uk/">http://www.manchester.ac.uk/ <i class='fa fa-external-link'></i></a></p> <p>Public research university in Manchester, England, formed in 2004 by merger of University of Manchester Institute of Science and Technology and Victoria University of Manchester. Second largest university in United Kingdom by enrollment.</p> <p></p> <p> <strong>Proper citation:</strong> University of Manchester; Manchester; United Kingdom (RRID:SCR_004996) <a href="javascript:void(0)" onclick="copyTextToClipboard('University of Manchester; Manchester; United Kingdom (RRID:SCR_004996)', 'rrid:scr_004996')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_004996" 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_004997/resolver?q=%2A&l=&i=rrid:scr_004997">Bio X Cell <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_004997 </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_004997&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="https://bxcell.com/">https://bxcell.com/ <i class='fa fa-external-link'></i></a></p> <p>Commercial supplier and developer of in vivo antibodies. Provides antibodies and antibody production services.</p> <p></p> <p> <strong>Proper citation:</strong> Bio X Cell (RRID:SCR_004997) <a href="javascript:void(0)" onclick="copyTextToClipboard('Bio X Cell (RRID:SCR_004997)', 'rrid:scr_004997')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_004997" 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_005045/resolver?q=%2A&l=&i=rrid:scr_005045">ESPRIT-Tree <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_005045 </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_005045&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://plaza.ufl.edu/sunyijun/ES-Tree.htm">http://plaza.ufl.edu/sunyijun/ES-Tree.htm <i class='fa fa-external-link'></i></a></p> <p>Software for hierarchical Clustering Analysis of Millions of 16S rRNA Pyrosequences in Quasi-linear Time.</p> <p></p> <p> <strong>Proper citation:</strong> ESPRIT-Tree (RRID:SCR_005045) <a href="javascript:void(0)" onclick="copyTextToClipboard('ESPRIT-Tree (RRID:SCR_005045)', 'rrid:scr_005045')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005045" 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_005047/resolver?q=%2A&l=&i=rrid:scr_005047">Huazhong University of Science and Technology; Wuhan; China <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_005047 </h4> </ul> </div>  <p><a target="_blank" href="http://english.hust.edu.cn/">http://english.hust.edu.cn/ <i class='fa fa-external-link'></i></a></p> <p>Public research university located in Guanshan Subdistrict, Hongshan District, Wuhan, Hubei province, China.</p> <p></p> <p> <strong>Proper citation:</strong> Huazhong University of Science and Technology; Wuhan; China (RRID:SCR_005047) <a href="javascript:void(0)" onclick="copyTextToClipboard('Huazhong University of Science and Technology; Wuhan; China (RRID:SCR_005047)', 'rrid:scr_005047')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005047" 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_005079/resolver?q=%2A&l=&i=rrid:scr_005079">MBCluster.Seq <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_005079 </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_005079&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://cran.r-project.org/web/packages/MBCluster.Seq/index.html">http://cran.r-project.org/web/packages/MBCluster.Seq/index.html <i class='fa fa-external-link'></i></a></p> <p>Software to cluster genes based on Poisson or Negative-Binomial model for RNA-Seq or other digital gene expression (DGE) data.</p> <p></p> <p> <strong>Proper citation:</strong> MBCluster.Seq (RRID:SCR_005079) <a href="javascript:void(0)" onclick="copyTextToClipboard('MBCluster.Seq (RRID:SCR_005079)', 'rrid:scr_005079')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005079" 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_005070/resolver?q=%2A&l=&i=rrid:scr_005070">AGORA <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_005070 </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 50+ mentions. <a target="_self" href="/php/download-rin-rrid-mentions.php?viewid=nlx_144509-1&rrid=RRID:SCR_005070&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.biomedcentral.com/1471-2105/13/189">http://www.biomedcentral.com/1471-2105/13/189 <i class='fa fa-external-link'></i></a></p> <p>An algorithm to use optical map information directly within the de Bruijn graph framework to help produce an accurate assembly of a genome that is consistent with the optical map information provided. AGORA takes as input two data structures: OpMap ? an ordered list of fragment sizes representing the optical map; and Edges ? a list of de Bruijn graph edges with their corresponding sequences.</p> <p></p> <p> <strong>Proper citation:</strong> AGORA (RRID:SCR_005070) <a href="javascript:void(0)" onclick="copyTextToClipboard('AGORA (RRID:SCR_005070)', 'rrid:scr_005070')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005070" 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_005071/resolver?q=%2A&l=&i=rrid:scr_005071">GRASS <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_005071 </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 50+ mentions. <a target="_self" href="/php/download-rin-rrid-mentions.php?viewid=nlx_144509-1&rrid=RRID:SCR_005071&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="https://github.com/AlexeyG/GRASS">https://github.com/AlexeyG/GRASS <i class='fa fa-external-link'></i></a></p> <p>A generic algorithm for scaffolding next-generation sequencing assemblies.</p> <p></p> <p> <strong>Proper citation:</strong> GRASS (RRID:SCR_005071) <a href="javascript:void(0)" onclick="copyTextToClipboard('GRASS (RRID:SCR_005071)', 'rrid:scr_005071')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005071" 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_004938/resolver?q=%2A&l=&i=rrid:scr_004938">MapAl <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_004938 </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_004938&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.bioinf.boku.ac.at/pub/MapAl/">http://www.bioinf.boku.ac.at/pub/MapAl/ <i class='fa fa-external-link'></i></a></p> <p>A software tool for RNA-Seq expression profiling that builds on the established programs Bowtie and Cufflinks. Allowing an incorporation of ''gene models'' already at the alignment stage almost doubles the number of transcripts that can be measured reliably.</p> <p></p> <p> <strong>Proper citation:</strong> MapAl (RRID:SCR_004938) <a href="javascript:void(0)" onclick="copyTextToClipboard('MapAl (RRID:SCR_004938)', 'rrid:scr_004938')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_004938" 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_004931/resolver?q=%2A&l=&i=rrid:scr_004931">Open University; Milton Keynes; United Kingdom <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_004931 </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_004931&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.open.ac.uk/">http://www.open.ac.uk/ <i class='fa fa-external-link'></i></a></p> <p>Public research university and the largest university in the UK for undergraduate education. The majority of the OU's undergraduate students are based in the United Kingdom and principally study off-campus; many of its courses can also be studied anywhere in the world.</p> <p></p> <p> <strong>Proper citation:</strong> Open University; Milton Keynes; United Kingdom (RRID:SCR_004931) <a href="javascript:void(0)" onclick="copyTextToClipboard('Open University; Milton Keynes; United Kingdom (RRID:SCR_004931)', 'rrid:scr_004931')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_004931" 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_005068/resolver?q=%2A&l=&i=rrid:scr_005068">Bambus <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_005068 </h4> </ul> </div>  <p><a target="_blank" href="http://sourceforge.net/apps/mediawiki/amos/index.php?title=Bambus2">http://sourceforge.net/apps/mediawiki/amos/index.php?title=Bambus2 <i class='fa fa-external-link'></i></a></p> <p>Software for scaffolding to address some of the challenges encountered when analyzing metagenomes. Scaffolding represents the task of ordering and orienting contigs by incorporating additional information about their relative placement along the genome. While most other scaffolders are closely tied to a specific assembly program, Bambus accepts the output from most current assemblers and provides the user with great flexibility in choosing the scaffolding parameters. In particular, Bambus is able to accept contig linking data other than specified by mate-pairs. Such sources of information include alignment to a reference genome (Bambus can directly use the output of MUMmer), physical mapping data, or information about gene synteny.</p> <p></p> <p> <strong>Proper citation:</strong> Bambus (RRID:SCR_005068) <a href="javascript:void(0)" onclick="copyTextToClipboard('Bambus (RRID:SCR_005068)', 'rrid:scr_005068')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005068" 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_005064/resolver?q=%2A&l=&i=rrid:scr_005064">University of Iowa Carver College of Medicine; Iowa; USA <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_005064 </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_005064&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.medicine.uiowa.edu/">http://www.medicine.uiowa.edu/ <i class='fa fa-external-link'></i></a></p> <p>Medical school of the University of Iowa, located in Iowa City, in the U.S. state of Iowa.</p> <p></p> <p> <strong>Proper citation:</strong> University of Iowa Carver College of Medicine; Iowa; USA (RRID:SCR_005064) <a href="javascript:void(0)" onclick="copyTextToClipboard('University of Iowa Carver College of Medicine; Iowa; USA (RRID:SCR_005064)', 'rrid:scr_005064')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005064" 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_005062/resolver?q=%2A&l=&i=rrid:scr_005062">G-BLASTN <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_005062 </h4> </ul> </div>  <p><a target="_blank" href="http://www.comp.hkbu.edu.hk/~chxw/software/G-BLASTN.html">http://www.comp.hkbu.edu.hk/~chxw/software/G-BLASTN.html <i class='fa fa-external-link'></i></a></p> <p>A GPU-accelerated nucleotide alignment tool based on the widely used NCBI-BLAST. It can produce exactly the same results as NCBI-BLAST, and it also has very similar user commands. It also supports a pipeline mode, which can fully utilize the GPU and CPU resources when handling a batch of medium to large sized queries.</p> <p></p> <p> <strong>Proper citation:</strong> G-BLASTN (RRID:SCR_005062) <a href="javascript:void(0)" onclick="copyTextToClipboard('G-BLASTN (RRID:SCR_005062)', 'rrid:scr_005062')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005062" 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_004926/resolver?q=%2A&l=&i=rrid:scr_004926">Stanford Research Institute International <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_004926 </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_004926&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://sri.com/">http://sri.com/ <i class='fa fa-external-link'></i></a></p> <p>Independent, nonprofit research institute conducting client sponsored research and development for government agencies, commercial businesses, foundations, and other organizations. SRI also brings its innovations to the marketplace by licensing its intellectual property and creating new ventures. SRI was founded as Stanford Research Institute in 1946 by a group of West Coast industrialists and Stanford University. SRI formally separated from the University in 1970, and we changed our name to SRI International in 1977.</p> <p></p> <p> <strong>Proper citation:</strong> Stanford Research Institute International (RRID:SCR_004926) <a href="javascript:void(0)" onclick="copyTextToClipboard('Stanford Research Institute International (RRID:SCR_004926)', 'rrid:scr_004926')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_004926" 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_005137/resolver?q=%2A&l=&i=rrid:scr_005137">SLIDE <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_005137 </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 10+ mentions. <a target="_self" href="/php/download-rin-rrid-mentions.php?viewid=nlx_144509-1&rrid=RRID:SCR_005137&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="https://sites.google.com/site/jingyijli/SLIDE.zip">https://sites.google.com/site/jingyijli/SLIDE.zip <i class='fa fa-external-link'></i></a></p> <p>Software package that takes exon boundaries and RNA-Seq data as input to discern the set of mRNA isoforms that are most likely to present in an RNA-Seq sample. It is based on a linear model with a design matrix that models the sampling probability of RNA-Seq reads from different mRNA isoforms. To tackle the model unidentifiability issue, SLIDE uses a modified Lasso procedure for parameter estimation. Compared with deterministic isoform assembly algorithms (e.g., Cufflinks), SLIDE considers the stochastic aspects of RNA-Seq reads in exons from different isoforms and thus has increased power in detecting more novel isoforms. Another advantage of SLIDE is its flexibility of incorporating other transcriptomic data such as RACE, CAGE, and EST into its model to further increase isoform discovery accuracy. SLIDE can also work downstream of other RNA-Seq assembly algorithms to integrate newly discovered genes and exons. Besides isoform discovery, SLIDE sequentially uses the same linear model to estimate the abundance of discovered isoforms.</p> <p></p> <p> <strong>Proper citation:</strong> SLIDE (RRID:SCR_005137) <a href="javascript:void(0)" onclick="copyTextToClipboard('SLIDE (RRID:SCR_005137)', 'rrid:scr_005137')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005137" 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_005138/resolver?q=%2A&l=&i=rrid:scr_005138">VFS <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_005138 </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_005138&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://sourceforge.net/projects/viralfusionseq/">http://sourceforge.net/projects/viralfusionseq/ <i class='fa fa-external-link'></i></a></p> <p>A versatile high-throughput sequencing (HTS) tool for discovering viral integration events and reconstruct fusion transcripts at single-base resolution. It combines soft-clipping information, read-pair analysis, and targeted de novo assembly to discover and annotate viral-human fusion events. A simple yet effective empirical statistical model is used to evaluate the quality of fusion breakpoints. Minimal user defined parameters are required.</p> <p></p> <p> <strong>Proper citation:</strong> VFS (RRID:SCR_005138) <a href="javascript:void(0)" onclick="copyTextToClipboard('VFS (RRID:SCR_005138)', 'rrid:scr_005138')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005138" 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_005133/resolver?q=%2A&l=&i=rrid:scr_005133">RetroSeq <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_005133 </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 10+ mentions. <a target="_self" href="/php/download-rin-rrid-mentions.php?viewid=nlx_144509-1&rrid=RRID:SCR_005133&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="https://github.com/tk2/RetroSeq">https://github.com/tk2/RetroSeq <i class='fa fa-external-link'></i></a></p> <p>A tool for discovery and genotyping of transposable element variants (TEVs) (also known as mobile element insertions) from next-gen sequencing reads aligned to a reference genome in BAM format. The goal is to call TEVs that are not present in the reference genome but present in the sample that has been sequenced. It should be noted that RetroSeq can be used to locate any class of viral insertion in any species where whole-genome sequencing data with a suitable reference genome is available. RetroSeq is a two phase process, the first being the read pair discovery phase where discorandant mate pairs are detected and assigned to a TE class (Alu, SINE, LINE, etc.) by using either the annotated TE elements in the reference and/or aligned with Exonerate to the supplied library of viral sequences.</p> <p></p> <p> <strong>Proper citation:</strong> RetroSeq (RRID:SCR_005133) <a href="javascript:void(0)" onclick="copyTextToClipboard('RetroSeq (RRID:SCR_005133)', 'rrid:scr_005133')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005133" 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_005097/resolver?q=%2A&l=&i=rrid:scr_005097">Cloudbreak <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_005097 </h4> </ul> </div>  <p><a target="_blank" href="https://github.com/cwhelan/cloudbreak">https://github.com/cwhelan/cloudbreak <i class='fa fa-external-link'></i></a></p> <p>Software providing a Hadoop-based genomic structural variation (SV) caller for Illumina paired-end DNA sequencing data. It contains a full pipeline for aligning data in the form of FASTQ files using alignment pipelines that generate many possible mappings for every read, in the Hadoop framework. It then contains Hadoop jobs for computing genomic features from the alignments, and for calling insertion and deletion variants from those features.</p> <p></p> <p> <strong>Proper citation:</strong> Cloudbreak (RRID:SCR_005097) <a href="javascript:void(0)" onclick="copyTextToClipboard('Cloudbreak (RRID:SCR_005097)', 'rrid:scr_005097')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005097" 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_005092/resolver?q=%2A&l=&i=rrid:scr_005092">MMAPPR <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_005092 </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_005092&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://yost.genetics.utah.edu/software.php">http://yost.genetics.utah.edu/software.php <i class='fa fa-external-link'></i></a></p> <p>A software analysis pipeline for mapping mutations using RNA-seq that works without parental strain information, without the requirement of a pre-existing snp map of the organism, and without erroneous assumptions that recombination occurs at the same frequency across the genome. In addition, it compensates for the considerable amount of noise in RNA-seq datasets and simultaneously identifies the region where the mutation lies and generates a list of putative coding region mutations in the linked genomic segment. MMAPPR can utilize RNA-seq datasets from isolated tissues or whole organisms that are often generated for phenotypic analysis and gene network analysis in novel mutants.</p> <p></p> <p> <strong>Proper citation:</strong> MMAPPR (RRID:SCR_005092) <a href="javascript:void(0)" onclick="copyTextToClipboard('MMAPPR (RRID:SCR_005092)', 'rrid:scr_005092')"> <i class="fa fa-clipboard"></i> Copy </a>   <span id="rrid:scr_005092" 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="margin-bottom-30"></div> <div class="text-left"> <div class="text-left"><ul class="pagination"><li><a class="not-rin" href="https://rrid.site/data/source/nlx_144509-1/page/2/search?q=%2A&l=">芦</a></li><li><a class="not-rin" href="https://rrid.site/data/source/nlx_144509-1/search?q=%2A&l=">1</a></li><li><a class="not-rin" href="https://rrid.site/data/source/nlx_144509-1/page/2/search?q=%2A&l=">2</a></li><li class="active"><a class="not-rin" href="javascript:void(0)">3</a></li><li><a class="not-rin" href="https://rrid.site/data/source/nlx_144509-1/page/4/search?q=%2A&l=">4</a></li><li><a class="not-rin" href="https://rrid.site/data/source/nlx_144509-1/page/5/search?q=%2A&l=">5</a></li><li><a class="not-rin" href="https://rrid.site/data/source/nlx_144509-1/page/6/search?q=%2A&l=">6</a></li><li><a class="not-rin" href="https://rrid.site/data/source/nlx_144509-1/page/4/search?q=%2A&l=">禄</a></li></ul></div> </div> <hr/> <div class="rin"> <div id="cant-find-rrid"> <div class="panel"> <div class="panel-body"> <p>Can't find your Tool?</p> <p>We recommend that you click <span class="btn btn-info help-tooltip-btn" data-name="rin-search-tips.html"><i class="fa fa-question-circle"></i></span> next to the search bar to check some helpful tips on searches and refine your search firstly. 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