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v3.2.0 Release

· 2 min read

Hello all,

This release includes a new ability to provide simplified snapshots to the linear genome view, a new built-in clustering method for genotypes, and more

In-app clustering​

In recent versions, we provided the ability to cluster genotype and multi-wiggle tracks, however we provided an R script for users to perform clustering externally and import the results

With this release, we have added a basic in-app clustering workflow, greatly improving the ease-of-use of this feature

image

Screenshot of the in-app clustering user interface

Renamed embedded packages and restored vanillajs builds​

We have renamed our embedded packages

  • Renamed @jbrowse/react-linear-genome-view -> @jbrowse/react-linear-genome-view2
  • Renamed @jbrowse/react-circular-genome-view -> @jbrowse/react-circular-genome-view2
  • Renamed @jbrowse/react-app -> @jbrowse/react-app2

Motivation: our vanillajs builds, which people often pointed to the "latest" release on from CDN networks, were no longer able to be updated in a backwards compatible way.

Therefore, we have renamed the packages, and updated tutorials.

This allows us to continue updating the package without any breakage for existing users. Please let us know if you run into any issues!

Downloads​

To install JBrowse 2 for the web, you can download the link above, or you can use the JBrowse CLI to automatically download the latest version. See the JBrowse web quick start for more details.

yarn run v1.22.22 $ lerna-changelog --silent --silent --next-version 3.2.0

3.2.0 (2025-03-22)​

🚀 Enhancement​

  • core
    • #4919 Add in-app clustering method for multi-wiggle tracks (@cmdcolin)
    • #4909 Add ability to load refNameAliases from chromAliases.bb file (@cmdcolin)
    • #4906 Add in-app clustering method for genotype matrix (@cmdcolin)
  • Other
    • #4914 Allow looking up header column by name for RefNameAliases (@cmdcolin)
    • #4910 Allow refNameColumn in RefNameAliasAdapter to override the default displayed refnames (@cmdcolin)
    • #4907 Simplified snapshot API for initial navigation of LGV (@cmdcolin)
  • app-core, core, product-core, web-core
    • #4899 Add aborting to multi-variant rendering, multi-wiggle rendering (@cmdcolin)

🐛 Bug Fix​

  • #4920 Fix issue where multi-level linear synteny view would show a blank tracklist (@cmdcolin)
  • #4913 Fix parent aggregation in BigBed files using larger request window (@cmdcolin)
  • #4905 Fix bug where applying genotype clustering twice produces randomness (@cmdcolin)
  • #4897 Fix clustering for certain sets of bigwig files (@cmdcolin)

Committers: 1​