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/han945Sv.html src/hg/makeDb/trackDb/human/han945Sv.html index a719ff0018a..00a85165dab 100644 --- src/hg/makeDb/trackDb/human/han945Sv.html +++ src/hg/makeDb/trackDb/human/han945Sv.html @@ -40,31 +40,31 @@ 42,300 insertions, 13,503 duplications, 5,595 inversions and 372 translocations. </p> <p> The site-only VCF released at <a href="https://www.biosino.org/node/analysis/detail/OEZ007028" target="_blank"> OMIX accession OED00945268</a> (<tt>OED00945268_Han_945samples_SV.vcf.gz</tt>) was converted to BED for this track. </p> <p> The step-by-step build commands (download, format conversion, bigBed build) are recorded in the UCSC makeDoc for this track container: <a href="https://github.com/ucscGenomeBrowser/kent/blob/master/src/hg/makeDb/doc/hg38/lrSv.txt" target="_blank"> doc/hg38/lrSv.txt</a>. The conversion scripts and autoSql schemas live in <a href="https://github.com/ucscGenomeBrowser/kent/tree/master/src/hg/makeDb/scripts/lrSv" target="_blank"> -makeDb/scripts/lrSv</a>. +makeDb/scripts/lrSv</a>, and the track configuration is in <a href="https://github.com/ucscGenomeBrowser/kent/blob/master/src/hg/makeDb/trackDb/human/lrSv.ra" target="_blank">trackDb/human/lrSv.ra</a>. </p> <h2>Data Access</h2> <p> The raw VCF data was obtained from the <a href="https://www.biosino.org/node/analysis/detail/OEZ007028" target="_blank">OMIX</a> repository (accession OED00945268) at the National Genomics Data Center (NGDC), China National Center for Bioinformation. </p> <p> The source VCF also encodes phased per-sample genotypes: the <tt>sampleList</tt> field on the detail page is derived from the SURVIVOR <tt>SUPP_VEC</tt> bitmask and is an ordered list of the 1-based indices of the 945 samples carrying each SV. The full per-sample phased VCF can be browsed as a separate track in the <a href="hgTrackUi?g=han945SvVcf">SVs from 945 Han Chinese</a> entry of