Commits for gperez2

v501_base to v502_preview (2026-07-20 to 2026-07-27) v502

b86eab362ce697c350764ffe438ccdba8829e0f3 Mon Jul 20 17:37:35 2026 -0700

• Fixing the NMDetective-A/B score-range text (0 to 1, not -1 to +1), updating the citation to Lindeboom et al. 2019, and changing viewLimits to -0.3:1.5 on all four NMDetective subtracks. refs #37843
  • src/hg/makeDb/trackDb/human/hg38/nmd.html - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/nmd.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/nmdDetective.html - lines changed 16, context: html, text, full: html, text

c7a78bd7342f93f63acaf6759ca7077b9caaa64c Wed Jul 22 22:05:43 2026 -0700

• Announcing the ENCODE4 cCREs and ENCODE4 Regulation tracks. Adding pennantIcons on mm10 cCREs/cCREregistry/coreCcres and hg38/mm10 ENCODE4 Regulation supertracks, making ENCODE4 Regulation show by default and adding a deprecation pennantIcon on ENCODE3 Regulation. Renaming ENCODE Regulation to ENCODE3 Regulation on hg38 and removing the separate wgEncodeReg.alpha.ra file. refs #37845 refs #34923 refs #37131
  • src/hg/htdocs/goldenPath/newsarch.html - lines changed 129, context: html, text, full: html, text
  • src/hg/htdocs/images/encode4Regulation.png - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/htdocs/images/encode4Release.png - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/htdocs/indexNews.html - lines changed 12, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/trackDb.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/wgEncodeReg.alpha.ra - lines changed 407, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/wgEncodeReg.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/wgEncodeReg4.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/encode.cCREs.override.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/encode4.ccres.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/encode4Reg.ra - lines changed 2, context: html, text, full: html, text

42e67e7ac80677bec2f1d71e01dba92625f0078c Thu Jul 23 11:10:20 2026 -0700

• Hiding the default hg38 ENCODE3 Regulation supertrack now that ENCODE4 Regulation is on by default. refs #37845 refs #34923
  • src/hg/makeDb/trackDb/human/hg38/wgEncodeReg.ra - lines changed 1, context: html, text, full: html, text