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/schema.html src/hg/makeDb/trackDb/human/schema.html
index 279381df392..8dc7356f024 100644
--- src/hg/makeDb/trackDb/human/schema.html
+++ src/hg/makeDb/trackDb/human/schema.html
@@ -3,31 +3,31 @@
 The <a href="https://schema.broadinstitute.org/" target="_blank">SCHEMA</a> (Schizophrenia Exome
 Meta-Analysis) consortium is an international collaboration that aggregated and harmonized
 whole-exome sequencing data to study the role of rare coding variants in schizophrenia.
 The dataset includes 24,248 cases and 97,322 controls from diverse global cohorts.
 SCHEMA identified genes with exome-wide significant rare variant burden in schizophrenia,
 providing insights into the biological underpinnings of the disorder.
 </p>
 
 <h2>Data Access</h2>
 <p>
 Since the data can be downloaded from the SCHEMA website, and does not seem to be under a license,
 we assume that we are allowed to redistribute it in VCF format.
 The data can be explored on our website 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>schema</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>
 Summary statistics and variant-level results are also available from the
 <a href="https://schema.broadinstitute.org/" target="_blank">SCHEMA Browser</a>.
 </p>
 
 <h2>Methods</h2>
 <p>
 The SCHEMA (Schizophrenia Exome Meta-Analysis) consortium aggregated whole-exome sequencing
 data from 24,248 schizophrenia cases and 97,322 controls (including non-psychiatric,
 non-neurological samples from the gnomAD consortium) across multiple international cohorts.
 Exome sequencing was performed using various capture platforms and Illumina sequencing