JBrowse v3.5.0 released https://jbrowse.org/jb2/blog/2025/05/27/v3.5.0-release/
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Alliance of Genome ResourcesThis month's Alliance webinar is 'JBrowse2 at the Alliance', presented by Jeff De Pons with co-host Anne Kwitek, on Thursday May 15 at noon EDT. Please preregister by Wednesday May 14 (by midnight EDT please) to get the Zoom link https://forms.gle/GzMnmwK23SzPxbQw7
You can find the schedule of upcoming Alliance Office Hours, as well as links to the recordings of previous webinars on the Alliance Event Calendar https://www.alliancegenome.org/event-calendar
You can find the schedule of upcoming Alliance Office Hours, as well as links to the recordings of previous webinars on the Alliance Event Calendar https://www.alliancegenome.org/event-calendar
JBrowse v3.3.0 is released, featuring a big update: multi-sample SV visualization!
Users can now see complex patterns of structural variation from multi-sample VCF files. Users can also get detailed mouseover information for each sample, and see genotype frequencies in the sidebar
Release notes: https://jbrowse.org/jb2/blog/2025/04/18/v3.3.0-release/
Colin Dtrying out the 1001 genomes data (arabidopsis) with the multi-sample variant viewer...
showing some big blocks of "no call" variants (the ./. in VCF ) in yellow...sort of indirect but these are a great 'secondary' signal for deletion SVs
finally made a little breakthrough on finding "phased segments" from a phased VCF...had to twiddle with the hap-ibd settings to lower the defaults to output much smaller blocks. these are fragmented, but do correspond to valid blocks from what i can tell
picture shows the correspondence between hap-ibd output and the raw VCF data with a trio VCF (6 rows, each row being a haplotype of the sample)
Apollo 2.8.0 released with an important security patch
JBrowse v3.0.2 released https://jbrowse.org/jb2/blog/2025/02/13/v3.0.2-release/
I know it's a bit late, but we finally got around to writing our 2024 year in review! https://jbrowse.org/jb2/blog/2025/02/13/yearinreview/
Let us know what you think!
For those of you who are on BlueSky, we also just kicked off our BlueSky account. Give us a like and a follow :) https://bsky.app/profile/jbrowse.org
JBrowse v3.0.0 released! You can keep calling it JBrowse 2, we just did the major version bump to be good semantic versioning citizens (JBrowse 2 itself has already gone from 0.0.1->1.x.x->2.x.x->now 3.x.x)
In this release we added new phased VCF and polyploid VCF visualizations and a bunch more
Release notes here https://jbrowse.org/jb2/blog/2025/01/29/v3.0.0-release/