6aca098fdf7765a7122271fdcc18d5ddfe468edc max Sun Oct 4 09:59:09 2026 -0700 trackDb docs: maxItems now also sets the VCF record limit of vcfTabix tracks, refs #37306 diff --git src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml index 2bba21bdfcb..640b8e7d94d 100644 --- src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml +++ src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml @@ -2345,37 +2345,43 @@ itemRgb off, or by a color setting when neither the track nor its parent says itemRgb on. The currently selected scheme is stored in the cart variable <trackName>.colorField. When a non-default scheme is active, the track long label gains a (Coloring by: <label>) suffix.

Example:

     colorFields default="Kozak strength" colorByEvidence="Evidence type" colorByHlaClass="HLA class"
     

This creates a three-option dropdown. colorByEvidence and colorByHlaClass must be extra fields in the bigBed whose values are R,G,B strings.

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+
maxItems <integer>

Maximum number of items to display individually in full or pack or squish mode. When the maximum is exceeded, the track switches to coverage mode. Default: 1000. For type bigBed tracks, this setting can never be larger than the hg.conf setting bigBedMaxItems, which by default is 100,000 at UCSC.

+

For type vcfTabix tracks, maxItems is the maximum number of + VCF records loaded for the current window. If the window holds more, the track asks the + user to zoom in. Without this setting, the limit is the hg.conf setting vcfMaxItems, + 10,000 by default. Raising it lets the haplotype display of a large genotype VCF be + viewed in larger windows, but drawing becomes slow with many samples. +

bigBedMaxItems is configured globally for a Genome Browser server and sets an upper limit on how many features can be loaded at most from a bigBed file, to avoid a single track making a Genome Browser view unusable at high zoom levels so it the upper limit for all maxItems settings of any tracks shown on a Genome Browser. If you have feedback on these values, please do not hesitate to contact us.

Example:

   maxItems 25
maxWindowCoverage <integer>

When too many individual bed items might be shown in the Browser image (such as might occur when a large region of a chromosome is viewed),