38bafc856320cf5360e0482faeee72b78f2ea963
lrnassar
  Tue May 5 14:13:30 2026 -0700
QA pass on varFreqs per-subtrack description pages: encode 3 plain emails, add target=_blank to 15 boilerplate REST API links, and add missing References sections (and Data Access on varFreqsAll). refs #36642

Mechanical fixes across 18 per-subtrack description pages:
- Encoded 3 plain author/contact emails: pfeliciano@simonsfoundation.org (sfariSparkExomes), m.hobbs@garvan.org.au (mgrb), contact_npco@a-star.edu.sg (npm).
- Added target="_blank" to 15 occurrences of the boilerplate "<a href=https://api.genome.ucsc.edu>REST API</a>" link across allofus, topmed, sfariSparkExomes, tommo60kjpn, alfaVcf, gasp, abraom, indigenomes, hrc, saudi, schema, sgdpFreq, gregor, hgdp1kFreq, colorsDbSnv.

Added missing References sections:
- allofus.html: All of Us Research Program 2024 Nature.
- topmed.html: Taliun 2021 Nature.
- alfaVcf.html: NCBI ALFA documentation citation (no peer-reviewed paper yet).
- gregor.html: GREGoR R04 Methods document + consortium website (no flagship publication yet).
- varFreqsAll.html: pointer to the supertrack's References section, plus tool citations (bcftools csq, Ensembl VEP).

Added missing Data Access section on varFreqsAll.html explaining that the merged callset is not downloadable due to mixed source-data licensing, but can be reconstructed from the per-subtrack VCFs using the conversion scripts on GitHub.

All 25 unique varFreqs description pages now have Description, Methods, Data Access, References. No non-ASCII characters and no inline event handlers across the set.

diff --git src/hg/makeDb/trackDb/human/sgdpFreq.html src/hg/makeDb/trackDb/human/sgdpFreq.html
index fbaa4472bf3..2493a74358b 100644
--- src/hg/makeDb/trackDb/human/sgdpFreq.html
+++ src/hg/makeDb/trackDb/human/sgdpFreq.html
@@ -11,31 +11,31 @@
 </p>
 
 <p>
 This track shows allele frequencies only. The full phased genotype data with haplotype
 clustering display is available in the
 <a href="hgTrackUi?g=sgdp">SGDP track</a> under Phased Variants.
 Not all SGDP data is public, so this track contains only 279 genomes.
 The hg38 data was lifted from hg19.
 </p>
 
 <h2>Data Access</h2>
 <p>
 The data can be explored interactively with the
 <a href="../cgi-bin/hgTables">Table Browser</a> or the
 <a href="../cgi-bin/hgIntegrator">Data Integrator</a>.
-For programmatic access, our <a href="https://api.genome.ucsc.edu">REST API</a> can be used; the
+For programmatic access, our <a href="https://api.genome.ucsc.edu" target="_blank">REST API</a> can be used; the
 track name is <em>sgdpFreq</em>.
 For bulk download, the VCF file can be obtained from
 <a href="http://hgdownload.soe.ucsc.edu/gbdb/hg38/varFreqs/" target="_blank">our download server</a>.
 </p>
 
 <p>The original source VCFs are available from
 <a href="https://sharehost.hms.harvard.edu/genetics/reich_lab/sgdp/vcf_variants/"
 target="_blank">https://sharehost.hms.harvard.edu/genetics/reich_lab/sgdp/vcf_variants/</a>.
 </p>
 
 <h2>Methods</h2>
 <p>
 High-coverage whole-genome sequencing of 300 individuals (279 publicly available) from 142
 diverse populations was performed on Illumina instruments using PCR-free library preparation at
 an average depth of 43x. Reads were aligned to the hs37d5 reference (GRCh37 with decoy