6efc703aec6bbfaeb2c1550f1cb45b3771629f86 lrnassar Mon Oct 24 17:05:08 2022 -0700 Updating documentation from 'My Hubs' to the new name 'Connected Hubs' refs #29870 diff --git src/hg/htdocs/goldenPath/help/hgTrackHubHelp.html src/hg/htdocs/goldenPath/help/hgTrackHubHelp.html index fd83e90..e2a834f 100755 --- src/hg/htdocs/goldenPath/help/hgTrackHubHelp.html +++ src/hg/htdocs/goldenPath/help/hgTrackHubHelp.html @@ -142,31 +142,31 @@ To view a hub's data, click on an assembly name on the row of your hub or the "Connect" button. If you clicked the "Connect" button, choose your assembly or click the "Genome Browser" link from the top blue bar to be brought to the default assembly. The selected hub tracks will be listed in a separate track group below the browser image and can be <a href="hgTracksHelp.html#FineTuning">configured</a> just like native browser tracks. Exercise caution when viewing a wide region that requires the Genome Browser to display a large number of track features: the browser display may time out. </p> <a name="unlistedHubs"></a> <h3>Unlisted hubs (located in the <a href="../../cgi-bin/hgHubConnect#unlistedHubs">My Hubs</a> tab)</h3> <p>In addition to the Public Hubs listed, it is possible to load your own track hub or one created by a colleague. To add an unlisted hub, open the Track Hubs page and click the <a href="../../cgi-bin/hgHubConnect#unlistedHubs"> -My Hubs</a> tab. +Connected Hubs</a> tab. To import a new hub, type or paste its URL into the text box, then click the "Add Hub" button. If successful, your track hub will appear on that page.</p> <p> Tracks accessed through a hub can be used in Genome Browser <a href="hgSessionHelp.html">sessions</a> and <a href="hgTracksHelp.html#CustomTracks">custom tracks</a> in the same manner as other tracks. The data underlying data hub tracks can be viewed, manipulated, and downloaded using the <a href="../../cgi-bin/hgTables">UCSC Table Browser</a>. To remove a track hub from your Genome Browser display, click the "Disconnect" button on the Track Hubs page.</p> <p> For confidential or private data, please note that unlisted hubs are not secure. The URL helps to hide the location of the data; it is a simple barrier of obscurity. Please also know that hubs can be loaded from local directories when using <a href="hubQuickStartAssembly.html#blatGbib">GBiB</a>.</p> @@ -800,31 +800,31 @@ <!-- ========== Registering a Track Hub with UCSC ==================== --> <a name="Register"></a> <h2>Registering a Track Hub with UCSC</h2> <p> If you would like to share your track hub with other Genome Browser users, you can register your hub with UCSC by contacting the Genome Browser technical support mailing list at <a href="mailto:genome@soe.ucsc.edu">genome@soe.ucsc.edu</a>. Please include the URL of your hub.txt file in the message. Once registered, your hub will appear as a link on the Public Hubs tab on the Track Hubs page. To assist developers of Public Hubs, there is a <a href="http://genomewiki.ucsc.edu/index.php/Public_Hub_Guidelines">Public Hubs Guidelines</a> page. The page shares pointers and preferred style approaches, such as the need for creating description html pages for your data that display any available references and an email contact for further data questions.</p> <p> Alternatively, you can share your track hub with selected colleagues by providing them with the URL -needed to load your hub via the My Hubs tab.</p> +needed to load your hub via the Connected Hubs tab.</p> <!--Note: Probably should add a blurb about (lack of) security here. Maybe just expand this section to be about sharing hub data.--> <!-- ======== Testing hub compatibility between genome browsers ============== --> <a name="Compatibility"></a> <h2>Checking Hub settings and Compatibility</h2> <p> Due to the growth in popularity of the track hub format, other genome browsers have begun supporting the UCSC track hub format. The hubCheck utility can be used to check the compatibility of your hub with the UCSC Genome Browser and other genome browsers. The following examples describe various settings that may be useful to you as you test this compatibility.</p> <p> <strong><em>Example 1:</em></strong> Listing the trackDb settings and their support levels