68c5b3b5dfc4053ff78a6b1d236bd1ac90251cfa
lrnassar
  Mon Jun 1 14:40:45 2026 -0700
varFreqs: description pages for the three combined tracks and "SNV" rename
sweep.

Add varFreqsDisease.html and varFreqsArray.html so the two new combined
tracks have full Description/Display/Methods/Data Access/References. Add a
Caveats section on varFreqsArray about chip-data quality vs sequencing.

Update varFreqsAll.html and the supertrack varFreqs.html to reflect the
three-combined-track family (cross-links between siblings, new "Combined
Tracks" section, new table rows, and updated source/variant counts). Add a
GoNL row to the supertrack table.

Sweep 37 subtrack longLabels and four cross-referencing description pages
(colorsDbSnv.html, mei.html, meiSwegen.html, phasedVars.html) from
"Variant Frequencies:" to "SNV Frequencies:" to match the supertrack
shortLabel. refs #36642

diff --git src/hg/makeDb/trackDb/human/mei.html src/hg/makeDb/trackDb/human/mei.html
index 1f8ba13ecb9..e708a6d62a3 100644
--- src/hg/makeDb/trackDb/human/mei.html
+++ src/hg/makeDb/trackDb/human/mei.html
@@ -28,31 +28,31 @@
   <li><a href="hgTrackUi?g=meiDeepmei1kg">DeepMEI 1000G MEIs</a> -
       91,617 mobile element insertions called by the DeepMEI
       convolutional neural network on the 3,202 high-coverage 1000
       Genomes samples (Xu et al. 2023, bioRxiv). hg38 only.</li>
   <li><a href="hgTrackUi?g=meiHmeid">HMEID 5675 MEIs</a> -
       36,699 mobile element insertions called by MELT on 5,675 samples
       from the NyuWa Chinese cohort and the 1000 Genomes Project,
       with per-cohort and per-super-population allele frequencies
       (Niu et al. 2022, <em>Nucleic Acids Res</em>). hg38 only.</li>
   <li><a href="hgTrackUi?g=meiSwegen">SweGen 1000 MEIs</a> -
       18,090 mobile element insertions called by MELT v2.0.2 on the
       1,000 SweGen Swedish whole-genome samples (Ameur et al. 2017,
       <em>Eur J Hum Genet</em>), lifted from GRCh37 to hg38. The
       short-variant frequencies for the same cohort are in the
       <a href="hgTrackUi?g=swegen">SweGen</a> subtrack of
-      <a href="hgTrackUi?g=varFreqs">Variant Frequencies</a>.</li>
+      <a href="hgTrackUi?g=varFreqs">SNV Frequencies</a>.</li>
 </ul>
 
 <p>
 Related: <a href="hgTrackUi?g=lrSv">Long-read Structural Variants</a>
 contains the parent SV callsets from which several of these MEI tracks
 are derived. <a href="hgTrackUi?g=rmsk">RepeatMasker</a> shows
 all annotated mobile elements in the reference genome (regardless of
 whether they are polymorphic).
 </p>
 
 <h2>Display Conventions and Configuration</h2>
 <p>
 Each MEI is shown as a 1-bp anchor block at the position where the
 insertion attaches to the reference. Items are colored by element class:
 </p>