9a63ecfed718d4ad0b2c5212c7ad8844c9d23531
lrnassar
Mon Jun 29 14:21:07 2026 -0700
lrSv: add GitHub source links (makedoc, scripts, trackDb.ra) to all description pages. refs #36258
Per the updated qa-track standard, link the track's UCSC source artifacts on
github.com/ucscGenomeBrowser/kent from every lrSv description page:
- Add the missing links to the lrSv supertrack page and colorsDbSv.
- Backfill the trackDb.ra link (third artifact) across the subtrack pages that
already linked the makedoc + scripts dir.
lrSv1kLin is left as its placeholder (staged, not released).
diff --git src/hg/makeDb/trackDb/human/lrSv.html src/hg/makeDb/trackDb/human/lrSv.html
index e55ac8a085f..9d69f9b1e9c 100644
--- src/hg/makeDb/trackDb/human/lrSv.html
+++ src/hg/makeDb/trackDb/human/lrSv.html
@@ -338,31 +338,38 @@
alongside the GWAS SVatalog tool (Chirmade et al. 2026). The samples come
from the CF Canada-Sick Kids Program in Individual CF Therapy (CFIT), a
cystic-fibrosis (CF) patient cohort assembled to model patient-specific
responses to CFTR modulator therapies (most participants are F508del
homozygotes or F508del / minimal-function compound heterozygotes; a smaller
number carry rare nonsense or missense CFTR mutations). ~87k SVs
(deletions, insertions, duplications, inversions and complex events)
annotated with gene overlaps, ClinGen / gnomAD constraint scores,
OMIM / ClinVar / DGV / Decipher regional annotations.
Data Access
Each subtrack has its own documentation page with details on how to download
-and intersect the underlying annotations.
+and intersect the underlying annotations. The build process for all subtracks
+is recorded in the UCSC makeDoc,
+doc/hg38/lrSv.txt
+(and doc/hs1/lrSv.txt
+for T2T-CHM13); the conversion scripts are in
+makeDb/scripts/lrSv,
+and the track configuration is in
+trackDb/human/lrSv.ra.
References
Gong J, Sun H, Wang K, Zhao Y, Huang Y, Chen Q, Qiao H, Gao Y, Zhao J, Ling Y et al.
Long-read sequencing of 945 Han individuals identifies structural variants associated with
phenotypic diversity and disease susceptibility.
Nat Commun. 2025 Feb 10;16(1):1494.
PMID: 39929826; PMC: PMC11811171