63c0f6234dbcc0c3fdc9bc2d0e673c8313bd6443 mspeir Sun Sep 27 11:57:25 2026 -0700 two minor fixes from automated CR, #37641 diff --git src/hg/htdocs/goldenPath/help/assemblyHubHelp.html src/hg/htdocs/goldenPath/help/assemblyHubHelp.html index d854232b295..5444e08261a 100755 --- src/hg/htdocs/goldenPath/help/assemblyHubHelp.html +++ src/hg/htdocs/goldenPath/help/assemblyHubHelp.html @@ -416,31 +416,31 @@ longLabel Variant calls over hg19 region type vcfTabix visibility pack bigDataUrl http://myServer.com/data/example.vcf.gz
hub.txt.genomes.txt.trackDb.txt.
If your hub requires a reference genome sequence, you can still provide a .2bit file
with twoBitPath. Grouping (previously in
-groups.txt). can also be integrated here if needed.
+groups.txt) can also be integrated here if needed.
Once hosted on a server, the single configuration file (and associated data files such as
.bigWig, .vcf.gz, .2bit) can be loaded into the UCSC Genome
Browser via the Connected Hubs tab of the
Track Data Hubs page.
Tracks are defined in the trackDb.txt file, where each stanza specifies how tracks are displayed (shortLabel, longLabel, color, visibility), along with other information such as the group the track belongs to (referencing groups.txt) and whether additional HTML should be displayed when a user clicks into the track or a track item:
@@ -770,31 +770,30 @@ IP/port configuration is incorrect.
Thegenomes.txtfile should also be checked to confirm that the BLAT line matches the correct IP and port. For example:blat 132.249.245.79 17777Instead of:blat localhost 17777
gfServer:
gfServer status yourLocation yourPortFor example:
gfServer status 132.249.245.79 17777Sample output might look like:
version 39x1 serverType static -version 39x1 type nucleotide host localhost port 17777 tileSize 11 stepSize 5 minMatch 2 pcr requests 0 blat requests 0 bases 0 misses 0 noSig 0 trimmed 0 warnings 0