281f91e4d0d2603d5cce2566f2b7483535365c62 bnguy Mon Mar 9 17:57:27 2020 -0700 Add '<' to click able icon closed as addressed in code review diff --git src/hg/cirm/gateway/htdocs/cirmIndex.html src/hg/cirm/gateway/htdocs/cirmIndex.html index b815071..bdda418 100755 --- src/hg/cirm/gateway/htdocs/cirmIndex.html +++ src/hg/cirm/gateway/htdocs/cirmIndex.html @@ -1,199 +1,199 @@ <!DOCTYPE html> <!--#set var="TITLE" value="CIRM Stem Cell Hub at UCSC Homepage" --> <!--#include virtual="setRoot.html" --> <!--#include virtual="${ROOT}inc/header.html" --> <div class="cirm-page-body"> <div class="cirm-page-title back-gray"> <h5 class="cirm-page-title-text">Welcome to the CESCG Stem Cell Hub!</h5> </div> <div class="container-fluid"> <div class="row" style="margin-bottom: 15px"> <div class="card col-12"> <div class="row" style="padding: 10px 0px"> <div class="col-md-1 text-right"> <br> - <a href="!--#echo var='ROOT'-->cgi-bin/cdwWebBrowse?cdwCommand=browseFiles"> + <a href="<!--#echo var='ROOT'-->cgi-bin/cdwWebBrowse?cdwCommand=browseFiles"> <i class="fas fa-search fa-4x text-dark-pink"></i> </a> </div> <div class="col-md-2"> <h3 class="text-dark-pink">Browse Files</h3> <p> Filter, view, and download files </p> <a href="<!--#echo var='ROOT'-->cgi-bin/cdwWebBrowse?cdwCommand=browseFiles" ><button type="button" class="btn btn-link"> More ></button></a> </div> <div class="col-md-1 text-right"> <br> - <a href="!--#echo var='ROOT'-->projects"> + <a href="<!--#echo var='ROOT'-->projects"> <i class="fas fa-project-diagram fa-4x text-light-blue"></i> </a> </div> <div class="col-md-2"> <h3 class="text-light-blue">View Datasets</h3> <p> Explore the datasets and assays available </p> <a href="<!--#echo var='ROOT'-->projects"><button type="button" class="btn btn-link"> More ></button></a> </div> <div class="col-md-1 text-right"> <br> - <a href= "!--#echo var='ROOT'-->cescg/cescgPubs"> + <a href= "<!--#echo var='ROOT'-->cescg/cescgPubs"> <i class="fas fa-file-alt fa-4x text-dark-pink"></i> </a> </div> <div class="col-md-2"> <h3 class="text-dark-pink">Read Articles</h3> <p> Read publications about CESCG research </p> <a href="<!--#echo var='ROOT'-->cescg/cescgPubs"><button type="button" class="btn btn-link"> More ></button></a> </div> <div class="col-md-1 text-right"> <br> <a href="<!--#echo var='ROOT'-->tools"> <i class="fas fa-toolbox fa-4x text-light-green"></i> </a> </div> <div class="col-md-2"> <h3 class="text-light-green">Use Tools</h3> <p> Take advantage of CESCG analysis tools </p> <a href="<!--#echo var='ROOT'-->tools"><button type="button" class="btn btn-link"> More ></button></a> </div> </div> </div> </div> <div class="row" style="margin-bottom: 15px"> <div class="card col-md-12"> <div class="row no-gutters"> <div class="card-body col-md-3"> <a href="https://www.flickr.com/photos/cirm/4596125130/" target="_blank"> <img src="images/cirmInsulinCells.jpg" class="img-fluid" alt=""> </a> </div> <div class="col" style="padding: 0px 15px"> <div class="card-body"> <div class="row"> <!-- <div class="col-md-6"> --> <div class="col-md-12"> <h6>Welcome to the Stem Cell Hub web site!</h6> <p class="card-text"> The CIRM Center of Excellence in Stem Cell Genomics (CESCG) was established with the goal to apply genomics and bioinformatics approaches to stem cell research to accelerate fundamental understanding of human biology and disease mechanisms, enhance cell and tissue production and advance personalized cellular therapies. The Stem Cell Hub was built with funding from CIRM to host high-quality genomic data collected under the CESCG Collaborative Research Programs (CRP).</p> <p class="card-text"> The Stem Cell Hub contains many terabytes of data that cover a large variety of sequencing assays, including a vast amount of single-cell data. It houses primary data files such as DNA reads in fastq format, as well as many types of files derived from mapping and other analysis of the primary data, and PDF and other document files describing protocols. Sequenced samples in the Stem Cell Hub include naturally developing human tissues as well as cells engineered from healthy skin and blood cells to become replacements for diseased cells and tissues, including data from ethically and scientifically careful human clinical trials.</p> <p class="card-text"> We hope that the Stem Cell Hub will be useful to a wide range of scientists from clinicians to cell biologists to bioinformaticians doing custom analysis and combining data from multiple projects. Please see the help link for additional information on how to use the site.</p> <p class="card-text"> If you have any questions, or if you'd like to contribute data to the Stem Cell Hub, please contact our support team at <a href = "mailto:cirm-wrangler-group@ucsc.edu">cirm-wrangler-group@ucsc.edu</a></p> <!-- </div> <div class="col-md-6"> <h6>What is the Stem Cell Hub?</h6> <p class="card-text"> The Stem Cell Hub combines state of the art software with careful human curation. The software runs quality checks that ensure the data is in the proper format, contains no contamination, that the DNA aligns in expected places, that the level of mitochondrial and ribosomal data are within expected range, and gathers statistics on how well replicates agree using a number of statistical measures. The system supports tagging the data using a flexible metadata system that allows experiments to be described in a concise but rich manner that reflects any natural hierarchies or control/experiment groups that are part of the experimental design. The human curators work with the contributing labs and the system to make sure that experiments are described consistently across labs and that metadata tags exist to describe even new, leading edge assays. The Stem Cell Hub can be searched using either a faceted search or SQL like queries on the metadata. The Hub can restrict access to certain data to specific users to meet privacy requirements. </p> </div> </div> <hr> <div class="row"> <div class="col-md-12"> --> </div> </div> </div> </div> </div> </div> </div> <!-- Section for Heart/Brain of Cells links <div class="row" style="margin-bottom: 15px"> <div class="card col-md-12"> <div class="row" style="padding-top: 15px"> <div class="col-md-1"> </div> <div class="col-md-1 text-right"> <br> <i class="fas fa-brain fa-4x text-light-blue"></i> </div> <div class="col-md-4"> <h1><a href="<!--#echo var='ROOT'-->dcg/brainOfCells">Brain of Cells</a></h1> <p> An analysis of CESCG and public developing brain data to discover new cell types and their marker genes. </div> <div class="col-md-1 text-right"> <br> <i class="fas fa-heart fa-4x text-dark-pink"></i> </div> <div class="col-md-4"> <h1><a href="<!--#echo var='ROOT'-->dcg/heartOfCells">Heart of Cells</a></h1> <p> An analyis of developing heart data to discover new cell states, the transistionary states between them, and the markers driving the movement from one cell to another. </div> <div class="col-md-1"> </div> </div> </div> </div> --> </div> </div> <!--#include virtual="${ROOT}inc/footer.html" -->