- v488 Preview 1 - 8 September 2025
- v488 Preview 2 - 15 September 2025
- v488 Final - 22 September 2025
Code changes:
- Added a search bar to the track hub definition documentation page (#35618). Chris
- Adding "c h" shortcut to hgTracks to quick-connect a track hub (#35667). Max
- Adding a "hide all" button in the group blue bar (#36354). Max
- Make it obvious to users that identifiers, filters, and intersections have been created and will affect the table browser output using color (#22159). Galt
- Remove 0-length characters from input when searching on hgGateway,hgTracks, and hgSearch (#36387). Chris
- Fixed bug where we didn’t find normalization options for hic files that don't annotate the first chromosome (#36389). Jonathan
- Have gff3ToGenePred indicate which GFF3 errors can be optionally treated as warnings. Mark
- Show proper links to download server for BAM files on the format description page (#36390). Mark
- Correct display of gene name on RefSeq gene track items (#36206). Hiram
- Fixed problem with lrg track nextExon using the wrong handler (#36318). Galt
- Fixed bigBeds limitWiggle optimization to work properly with multi-region (#35580). Galt
- Upgrading our NodeJS on dev from 0.10 to version 22, after 12 years (#36336). Max
- Upgraded RepeatMasker process to version 4.2.1 and RepeatModeler process to version 2.0.7. New genome assemblies going forward will use these new versions. Hiram
- Ongoing work on quickLift. Brian
Data changes:
- Wild-type SpliceAI scores for hg38 (#35100). Gerardo
- Added over 3,000 new fungi assemblies to the GenArk collection for the BRC project (#34337). Hiram
- Continuous GenArk updates and liftOver file generation (#29545). Hiram