f0d9b9d7a69a43e62c52d80b18ef06ba1bf335ed
lrnassar
Fri Jun 12 02:40:53 2026 -0700
varFreqs: add "tableBrowser off" to every subtrack whose bigDataUrl points
into an underscore-prefixed /gbdb dir (the rsync-exclusion convention for
non-redistributable cohorts). Covers varFreqsAffected, varFreqsBackground,
varFreqsArray, and genomeindia which were missing it.
Also fix the "Downloadable from UCSC" column on the supertrack page for
TOPMed, FinnGen and GenomeIndia (table said "Yes" but their gbdb paths
are underscore-prefixed, so they aren't actually downloadable from us).
refs #36642
diff --git src/hg/makeDb/trackDb/human/varFreqs.html src/hg/makeDb/trackDb/human/varFreqs.html
index e6887c122a8..4bfa6e2345d 100644
--- src/hg/makeDb/trackDb/human/varFreqs.html
+++ src/hg/makeDb/trackDb/human/varFreqs.html
@@ -113,31 +113,31 @@
USA |
245k |
WGS |
General population, diverse |
African, Indigenous American, East Asian, European, Oceanian, South Asian
(local ancestry; see Notes below) |
Yes |
| TOPMED Freeze 10 |
USA |
151k |
WGS |
Heart, lung, blood, sleep disorder cohorts |
— |
- Yes |
+ No |
| SFARI SPARK WES |
USA |
140k |
WES |
Autism families (parents + affected children) |
— |
No |
| SFARI SPARK WGS |
USA |
12.5k |
WGS |
@@ -149,31 +149,31 @@
NCBI ALFA R4 |
USA |
408k |
WGS/WES/array mix |
Aggregated dbGaP studies, mixed phenotypes |
— |
Yes |
| FinnGen R12 |
Finland |
500k |
Imputed (8.5k WGS ref panel) |
National biobank, ~10% of population |
— |
- Yes |
+ No |
| UK Biobank (Neale Lab v3) |
UK |
361k |
Imputed array (HRC+UK10K+1KGp3 ref panel) |
White British subset of UK Biobank, Neale Lab Round 2 GWAS |
— |
Yes |
| SweGen |
Sweden |
1k |
WGS |
@@ -267,31 +267,31 @@
IndiGenomes |
India |
1k |
WGS |
Healthy individuals |
— |
Yes |
| GenomeIndia 9.7k |
India |
9.8k |
WGS (≥23x) |
83 anthropologically defined endogamous populations across India |
— |
- Yes |
+ No |
| KOVA Korea |
Korea |
5.3k |
1.9k WGS + 3.4k WES |
Normal tissue from cancer patients, healthy parents, volunteers |
— |
No |
| NPM Singapore |
Singapore |
9.8k |
WGS |