76cf2d3e885d0a9f1473c703908d89f745f8fb9d chmalee Fri Aug 7 10:34:22 2020 -0700 Adding another sentence to step 6 of the bigBed doc to help with what hosting means, refs #26004 diff --git src/hg/htdocs/goldenPath/help/bigBed.html src/hg/htdocs/goldenPath/help/bigBed.html index 65b37b0..059c9eb 100755 --- src/hg/htdocs/goldenPath/help/bigBed.html +++ src/hg/htdocs/goldenPath/help/bigBed.html @@ -57,31 +57,31 @@ <strong>Step 4.</strong> Use the <code>fetchChromSizes</code> script from the <a href="http://hgdownload.soe.ucsc.edu/admin/exe/">same directory</a> to create the <em>chrom.sizes</em> file for the UCSC database you are working with (e.g., hg19). If the assembly <code>genNom</code> is hosted by UCSC, chrom.sizes can be a URL like: <code>http://hgdownload.soe.ucsc.edu/goldenPath/genNom/bigZips/genNom.chrom.sizes</code></p> <p> <strong>Step 5.</strong> Use the <code>bedToBigBed</code> utility to create a bigBed file from your sorted BED file, using the <em>input.bed</em> file and <em>chrom.sizes</em> files created in <em>Steps 1</em> and <em>4</em>:</p> <pre><code><strong>bedToBigBed</strong> input.bed chrom.sizes myBigBed.bb</code></pre> <p> <strong>Step 6.</strong> Move the newly created bigBed file (<em>myBigBed.bb</em>) to a web-accessible http, https, or -ftp location.</p> +ftp location. At this point you should have a URL to your data, such as "https://institution.edu/myBigBed.bb", and the file should be accessible outside of your institution/hosting providers network. For more information on where to host your data, please see the <a href="hgTrackHubHelp.html#Hosting">Hosting</a> section of the Track Hub Help documentation.</p> <p> <strong>Step 7.</strong> If the file name ends with a <em>.bigBed</em> or <em>.bb</em> suffix, you can paste the URL of the file directly into the <a href="../../cgi-bin/hgCustom">custom track</a> management page, click "submit" and view the file as a track in the Genome Browser. By default, the file name will be used to name the track. To configure the track name and descriptions, you must create a "<a href="hgTracksHelp.html#TRACK">track line</a>", as shown in <em>Step 8</em>.</p> <p> <strong>Step 8.</strong> Construct a <a href="hgTracksHelp.html#CustomTracks">custom track</a> using a single track line. Note that any of the track attributes listed <a href="customTrack.html#TRACK">here</a> are applicable to tracks of type bigBed. The most basic version of the track line will look something like this:</p> <pre><code><strong>track type=</strong>bigBed <strong>name=</strong>"My Big Bed" <strong>description=</strong>"A Graph of Data from My Lab" <strong>bigDataUrl=</strong>http://myorg.edu/mylab/myBigBed.bb</code></pre>