44b656609fe0b77c1162f052d94217bc04ccb916 luvina Wed Jun 15 14:26:32 2016 -0700 added news announcement for genome-mirror diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html index a0201d9..1aed149 100755 --- src/hg/htdocs/indexNews.html +++ src/hg/htdocs/indexNews.html @@ -26,30 +26,67 @@ <TR><TD WIDTH=10></TD> <TD> <P> To receive announcements of new genome assembly releases, new software features, updates and training seminars by email, subscribe to the <A HREF="http://groups.google.com/a/soe.ucsc.edu/group/genome-announce?hl=en" TARGET=_blank>genome-announce</A> mailing list. Please see our <a href="http://genome.ucsc.edu/blog" target=_blank>blog</a> for posts about Genome Browser tools, features, projects and more. </p> <hr> <!-- start news --> + <font color="#006666" size="4"><b>15 June 2016 - New Official Asian Mirror Released</b></font> + <p> + We are pleased to announce the introduction of a new supported Genome Browser mirror + to serve our users in Asia. The genome-asia server + <a href="http://genome-asia.ucsc.edu" target="_blank">(http://genome-asia.ucsc.edu)</a>, + which is administered by UCSC, is physically located at the + <a href="http://www.yokohama.riken.jp/english/" target="_blank">RIKEN Yokohama Campus</a> + in Japan. + </p> + <p> + Genome-asia is intended as an alternate, faster access point for those Browser users + who are geographically closer to Asia than to the western United States. The mirror + is functionally identical to the U.S.-based server, with one exception. Custom tracks + residing on the U.S. server are not automatically accessible from the genome-asia mirror; + therefore, the use of these custom tracks and saved sessions containing them will require + some manual intervention. + </p> + <p> + Genome Browser users located in Asia will be automatically redirected to genome-asia + when they click the "Genomes" menu item on the Genome Browser home page, but will have + the option to remain on the U.S.-based server (see documentation). In addition to the + genome-asia mirror, we continue to support a Europe-based Genome Browser mirror + <a href="http://genome-euro.ucsc.edu" target="_blank">(http://genome-euro.ucsc.edu)</a> + in Bielefeld, Germany. A third-party mirror in + <a href="http://genome-mirror.moma.ki.au.dk/" target="_blank">Aarhus, Denmark</a>, + is available as an emergency backup in the rare event + that our three supported sites are offline. + </p> + <p> + We wish to express our special thanks to Dr. Hideya Kawaji at the + <a href="http://www.riken.jp/en/research/labs/accc/" target="_blank">RIKEN Advanced + Center for Computing and Communication</a> for making this possible. We would also + like to acknowledge the following members of the UCSC Genome Browser team for their efforts: + Galt Barber, Robert Kuhn, Jorge Garcia, and Luvina Guruvadoo. + </p> + <hr> + <font color="#006666" size="4"><b>6 June 2016 - New video: Exon-only mode</b></font> </P> We are pleased to announce the release to our YouTube channel of a new training <A HREF = "https://www.youtube.com/watch?v=mNEJBOkf_Gk" TARGET = _BLANK>video</A>, in which we demonstrate the recently released Multi-Region feature in exon-only mode. This feature is useful for those studying gene expression or undertaking whole-exome sequencing. By removing intronic and intergenic regions, exon-only mode shows the portion (sometimes as little as a few percent) of the genome most useful for these analyses. </P> <P> This video is <A HREF ="training/vids/#vid09" TARGET = _BLANK>indexed</A> to allow easy access to relevant sections and comes with a transcript for the hard-of-hearing. @@ -75,94 +112,44 @@ and that the default is auto-scale data to view. Please note that using this feature on a <a href="goldenPath/help/gbib.html#GbibMirroring" target="_blank">virtual machine Genome Browser in a Box (GBiB)</a> may benefit from increasing memory.</p> <p> To turn on the feature click into the track controls for certain track types, such as a BAM custom track, and check the box next to "Display data as a density graph" to see graph configurations and then click "Submit". To see the new density graph feature in use, please see this example <a href="cgi-bin/hgTracks?hgS_doLoadUrl=submit&hgS_loadUrlName=http://genome.ucsc.edu/goldenPath/help/examples/sessions/session.hg19.densityGraph&hgct_customText=track%20type=bam%20name=bamExample%20visibility=full%20bigDataUrl=http://genome.ucsc.edu/goldenPath/help/examples/bamExample.bam%20doWiggle=1" target="_blank">session</a>. <p> Thanks to Brian Raney for the implementation of this feature.</p> <hr> - <font color="#006666" size="4"><b>10 May 2016 - New Gateway Page!</b></font> - <p> - The UCSC Genome Browser team is proud to announce a newly redesigned - <a href="../cgi-bin/hgGateway" target="_blank">Genome Browser Gateway</a> page. - The Gateway retains its original functionality as a central access point for all genome assemblies - available on our site, while sporting several helpful new features and updates:</p> - <ul> - <li>Autocomplete searching for any genome browser, genome version, or public hub</li> - <li>Species browsing through a scrollable visual - "tree" menu based on phylogenetic order</li> - <li>Quick access shortcuts to popular browsers</li> - <li>New style and color scheme</li> - </ul> - <p> - Please see our <a href="https://youtu.be/5zc9sqd4SD4" - target="_blank">Gateway video</a> for an introduction to these new features. - </p> - <p> - The new Gateway addresses the need for streamlined access to the rapidly - growing number of genome assemblies available on our public site. - As an alternative to scrolling through long drop-down menus of genome assemblies, you can - now simply type in assembly search terms for autocomplete recognition, visually scroll - through our collection, or click a button to access our most popular species. - </p> - <p> - Note that a few browser utilities that were previously accessed through links and buttons on the - Gateway page have been moved to the top menu bar: - </p> - <ul> - <li>Browser reset: Genome Browser > Reset All User Settings</li> - <li>Track search: Genome Browser > Track Search</li> - <li>Add custom tracks: My Data > Custom Tracks</li> - <li>Track hubs: My Data > Track Hubs</li> - <li>Configure tracks and display: Genome Browser > Configure</li> - </ul> - <p> - We would like to acknowledge the following people for their contributions - to the new Gateway: original art by Jeff West Design, concept by Robert Kuhn, - software design by Angie Hinrichs, and quality assurance by Cath Tyner.</p> - <hr> - <!-- start archives --> <!--staged for future release <p> <font color="#006666" size="4"><b>6 June 2016 - New video: Exon-only mode</b></font> We are proud to announce a new <A HREF = "">video</A> demonstrating the exon-only feature. This feature is useful in gene-expresson studies and for those doing whole-exome sequencing. <a href="goldenPath/newsarch.html#060616">Read more</a>. </p> <p> <font color="#006666" size="4"><b>1 June 2016 - New Density Graph Feature!</b></font> The Genome Browser is proud to announce a new "density graph" feature for a variety of tracks, including BAM custom tracks, that converts data into a summary display. <a href="goldenPath/newsarch.html#060116">Read more</a>. </p> - +--> <p> <font color="#006666" size="4"><b>10 May 2016 - New Gateway Page!</b>: </font> The UCSC Genome Browser team is proud to announce a newly redesigned <a href="../../cgi-bin/hgGateway" target="_blank">Genome Browser Gateway page</a>. Please see our <a href="https://youtu.be/5zc9sqd4SD4" target="_blank">Gateway video</a> for an introduction to these new features. <a href="goldenPath/newsarch.html#051016">Read more</a>. </p> ---> - <p> - <font color="#006666" size="4"><b>22 Apr 2016 - - Data from the Lens PatSeq Database Now Available</b>: </font> - We are pleased to announce the release of a set of tracks containing data from the - <a href="https://www.lens.org/" target="_blank">Lens</a> - PatSeq database in the UCSC Genome Browser. - <a href="goldenPath/newsarch.html#042216">Read more</a>. - </p> </TD><TD WIDTH=15> </TD></TR></TABLE> <BR></TD></TR></TABLE> </TD></TR></TABLE>