The easiest way to save and share tracks from the URL is by logging in to your Genome Browser account and creating a saved session. Saved sessions are a versatile way to share data that may include native annotations, Custom Tracks, Track Hubs, and Assembly Hubs. In these examples, text in brackets "<" and ">" indicate places where the user supplies information. Note that the brackets are not needed for the @@ -121,31 +121,31 @@ Here is an example which opens the uniprot track at the default position for sacCer3:
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=sacCer3&g=uniprot&position=default
To link to a specific HGVS identifier, you can construct a link with the HGVS identifier
in the position field instead of coordinates. The default padding is 5bp on either side,
but you can always zoom in or out with hgt.out1=submit or hgt.in1=submit.
The numbers 1 through 4 zoom in or out corresponding to the buttons above the track window.
The following lists the zoom levels of each number, applicable to zooming in or out:
hgt.out1=submit zooms out 1.5xhgt.out2=submit zooms out 3xhgt.out3=submit zooms out 10x
+hgt.out3=submit zooms out 10xhgt.out4=submit zooms out 100xThe following link is an example which leads to the variant NM_00257:c.1208G>T and zooms out 3x:
http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg19&position=NM_000257:c.1208G>T&hgt.out2=submit
You can control the visibility of tracks from the URL with the following parameters, each linked by the "&" sign, similar to position parameters. For more information, please see @@ -169,55 +169,55 @@ parameters can be used individually or in combination.
Composite tracks have additional URL parameters that encode options to hide, select, and display subtracks.
<trackName>_hideKids=1 - hides a specific composite track's subtracks<trackName>_sel=1 - selects specific subtrack to be 'checked', allowing
displayFor example, the following URL hides all tracks (hideTracks=1), hides a specific composite track's default subtracks (refSeqComposite_hideKids=1), turns on one specific subtrack (ncbiRefSeqCurated=full), and checks a box to display that subtrack -(ncbiRefSeqCurated_sel=1). +(ncbiRefSeqCurated_sel=1).
https://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&hideTracks=1&refSeqComposite_hideKids=1&ncbiRefSeqCurated=full&ncbiRefSeqCurated_sel=1
If you have a custom track on a web-accessible server, you can use the location of the file
to load it directly as part of a URL.
You can combine the URL visibility settings with the hgct_customText= parameter using
a track line you would otherwise put in the custom track
input box. The following example shows the hgct_customText parameter accepting
a bigBed file URL as a custom track:
http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=chr21:34821279-34888690&hgct_customText=https://genome.ucsc.edu/goldenPath/help/examples/bigBedExample.bb
If you want to add more information to the Custom Track, you can do so using the
hgct_customText parameter. Since this is a URL, you must use "%20" to encode
for spaces and "%0A" for a new line character. For example, the following example shows Custom
Track input pasted in the custom track input box and the
-equivalent input in the URL:
+equivalent input in the URL:
browser position chr21:33038946-33039092 track type=bam bigDataUrl=https://genome.ucsc.edu/goldenPath/help/examples/bamExample.bam name=Example description=ExampleBAM
http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&hgct_customText=browser%20position%20chr21:33038946-33039092%0Atrack%20type=bam%20bigDataUrl=https://genome.ucsc.edu/goldenPath/help/examples/bamExample.bam%20name=Example%20description=ExampleBAM
More information on custom track parameters can be found in the Custom Track user guide.
Similar to custom tracks, track hubs can be loaded into the URL using the
hubUrl= parameter. This parameter takes input similar to the
track hub input box. The following example
@@ -323,33 +323,30 @@
Visit our YouTube channel.
--
+- Visit our YouTube channel. -
-
- +