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/hprc2v21Sv.html src/hg/makeDb/trackDb/human/hprc2v21Sv.html index 196796a19a3..724e1b9956c 100644 --- src/hg/makeDb/trackDb/human/hprc2v21Sv.html +++ src/hg/makeDb/trackDb/human/hprc2v21Sv.html @@ -62,31 +62,32 @@ is shorter. At this size no balanced, equal-length substitutions came up, and the files carry no inversion calls, so the track has only insertions and deletions. On hg38, 549,649 alleles were kept (40,678 at nested snarl levels); on hs1, 541,176 (70,200 nested), after removing byte-identical duplicate records. Because these files are not broken down into atomic indels, one bubble can appear as a single large allele rather than several small ones, so the counts are not comparable to a wave-decomposed callset. Allele counts, frequencies and sample counts come straight from the VCF. </p> <p> The conversion script and autoSql schema are in <a href="https://github.com/ucscGenomeBrowser/kent/tree/master/src/hg/makeDb/scripts/lrSv" target="_blank"> makeDb/scripts/lrSv</a> and the build steps are in the makeDoc at <a href="https://github.com/ucscGenomeBrowser/kent/blob/master/src/hg/makeDb/doc/hg38/lrSv.txt" target="_blank"> -doc/hg38/lrSv.txt</a>. +doc/hg38/lrSv.txt</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 data can be explored interactively in table format with the <a href="hgTables">Table Browser</a> or the <a href="hgIntegrator">Data Integrator</a>, and read programmatically through our <a href="https://api.genome.ucsc.edu">API</a>, track=<i>hprc2v21Sv</i>. For automated download and analysis the variants are in a bigBed file on our download server, one per assembly: <a href="http://hgdownload.soe.ucsc.edu/gbdb/hg38/lrSv/hprc2v21.bb" target="_blank"> hg38</a> and <a href="http://hgdownload.soe.ucsc.edu/gbdb/hs1/lrSv/hprc2v21.bb" target="_blank"> hs1</a>. You can pull out one region or the whole set with <tt>bigBedToBed</tt>, for example