571d56486794183897e7eb88719fe1025d1ea442 hiram Mon Dec 20 21:32:19 2021 -0800 up to date with zoonomia added no redmine diff --git src/hg/makeDb/doc/asmHubs/hgdownload.index.html src/hg/makeDb/doc/asmHubs/hgdownload.index.html index 734cfa6..4d038ce 100755 --- src/hg/makeDb/doc/asmHubs/hgdownload.index.html +++ src/hg/makeDb/doc/asmHubs/hgdownload.index.html @@ -1,75 +1,74 @@ <!DOCTYPE HTML 4.01 Transitional> -<!--#set var="TITLE" value="U.C. Santa Cruz Genomics Institute Assembly and Track hubs" --> +<!--#set var="TITLE" value="GenArk: UCSC Genome Archive" --> <!--#set var="ROOT" value=".." --> <!--#include virtual="$ROOT/inc/gbPageStartHardcoded.html" --> -<h1>U.C. Santa Cruz Genomics Institute Assembly and Track hubs</h1> +<h1>GenArk: UCSC Genome Archive</h1> <table class='sortable' border='1'> <thead> <th>hub gateway</th> <th>description</th> </tr></thead><tbody> <tr> <td><a href='primates/index.html' target=_blank>primates</a></td> - <td>NCBI primate genomes (28 assemblies)</td> + <td>NCBI primate genomes (49 assemblies)</td> </tr> <tr> <td><a href='mammals/index.html' target=_blank>mammals</a></td> - <td>NCBI mammal genomes (115 assemblies)</td> + <td>NCBI mammal genomes (267 assemblies)</td> </tr> <tr> <td><a href='birds/index.html' target=_blank>birds</a></td> - <td>NCBI bird genomes (72 assemblies)</td> + <td>NCBI bird genomes (112 assemblies)</td> </tr> <tr> <td><a href='fish/index.html' target=_blank>fishes</a></td> - <td>NCBI fish genomes (86 assemblies)</td> + <td>NCBI fish genomes (123 assemblies)</td> </tr> <tr> <td><a href='vertebrate/index.html' target=_blank>vertebrate</a></td> - <td>NCBI other vertebrate genomes (28 assemblies)</td> + <td>NCBI other vertebrate genomes (46 assemblies)</td> </tr> <tr> - <td><a href='legacy/index.html' target=_blank>legacy</a></td> - <td>NCBI genomes legacy/superseded by newer versions (16 assemblies)</td> + <td><a href='invertebrate/index.html' target=_blank>invertebrate</a></td> + <td>NCBI invertebrate genomes (375 assemblies)</td> +</tr> +<tr> + <td><a href='fungi/index.html' target=_blank>fungi</a></td> + <td>NCBI fungi genomes (405 assemblies)</td> </tr> <tr> <td><a href='plants/index.html' target=_blank>plants</a></td> - <td>NCBI plant genomes (105 assemblies)</td> + <td>NCBI plant genomes (141 assemblies)</td> </tr> <tr> <td><a href='VGP/index.html' target=_blank>VGP</a></td> - <td>Vertebrate Genomes Project collection (188 assemblies)</td> + <td>Vertebrate Genomes Project collection (233 assemblies)</td> </tr> <tr> <td><a href='globalReference/index.html' target=_blank>globalReference</a></td> <td>Global Human Reference genomes, January 2020 (10 assemblies)</td> </tr> <tr> <td><a href='mouseStrains/hubIndex.html' target=_blank>mouseStrains</a></td> <td>16 mouse strain assembly and track hub, May 2017</td> </tr> <tr> - <td><a href='gtexAnalysis/index.html' target=_blank>gtexAnalysis</a></td> - <td>Genotype-Tissue Expression (GTEx) Project analysis results track hub, V6 October 2015</td> -</tr> -<tr> - <td><a href='gtex/index.html' target=_blank>gtex</a></td> - <td>Genotype-Tissue Expression (GTEx) RNA-seq signal track hub, V6 October 2015</td> -</tr> -<tr> - <td><a href='neuroDiffCrispr/index.html' target=_blank>neuroDiffCrispr</a></td> - <td>Structurally conserved primate cerebral cortex lincRNAs track hub, December 2018</td> + <td><a href='legacy/index.html' target=_blank>legacy</a></td> + <td>NCBI genomes legacy/superseded by newer versions (119 assemblies)</td> </tr> </tbody></table> <p> -Please note: text file <a href='UCSC_GI.assemblyHubList.txt' target=_blank>listing</a> of 608 NCBI/VGP genome assembly hubs +Please note: text file <a href='UCSC_GI.assemblyHubList.txt' target=_blank>listing</a> of 1805 NCBI/VGP genome assembly hubs +</p> +<p> +Please note, the <em>invertebrate</em> category contains more than just <em>invertebrate</em> animals. Until these clades are sorted out, with extra categories created, you will also find parasites, protozoa, and other single celled eukaryotes in the <em>invertebrate</em> grouping. </p> </div><!-- closing gbsPage from gbPageStartHardcoded.html --> </div><!-- closing container-fluid from gbPageStartHardcoded.html --> <!--#include virtual="$ROOT/inc/gbFooterHardcoded.html"--> -<script type="text/javascript" src="/js/sorttable.js"></script> +<script type="text/javascript" src="<!--#echo var="ROOT" -->/js/sorttable.js"></script> </body></html>