galaxyprojectThe JXTX Foundation will provide support to 3 outstanding graduate students in genomics and data sciences to attend the Biology of Genomes meeting at CSHL (meetings.cshl.edu). The deadline is Jan 31 and just takes a short bio and abstract: https://gxy.io/jxtxbog26
The Toot of GMOD
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Scott CainAlso, relating to the severe slowdown of my work on GMOD, I'm very happy to announce that I've (mostly) completed the migration of https://gmod.org/ from a (very aged) MediaWiki site running on an AWS EC2 machine to a GitHub.io hosted instance (repo at https://github.com/GMOD/gmod.github.io). It's not perfect, and in need up updating, but at least now it will be easy for other people to pick it up and make changes. (And, I won't be charged for keeping that machine running on my personal AWS account!)
That feels "final": my GitHub avatar has been the logo of the project I've run for the last 22 years. Today is the last day working on the project full time (I imagine there will still be things I can be talked into doing). Anyway, I changed the avatar to a nice, close up picture of a California poppy I took last year.
JBrowseJBrowse v2.11.2 released, with a new feature to allow users to interactively add filters to features on genome browser tracks https://jbrowse.org/jb2/blog/2024/06/03/v2.11.2-release/
I have to migrate the contents of http://gmod.org/ away from an EC2 machine running Mediawiki to something else that is free, since soon I will no longer be able to get reimbursed for it. I was hoping to use https://github.com/outofcontrol/mediawiki-to-gfm to convert it to Github flavored markdown, but that is a long road since it doesn't seem to deal with templates, which we used *A LOT* on gmod.org. Does anybody have other suggestions for capturing all the information on the wiki and putting somewhere "useful"?
I broke my "no X" rule to post this over on the hell site. Here's the text of the tweet: This is Scott; my contract working on GMOD related tasks (including JBrowse, Chado, and Tripal) and other projects like https://wormbase.org and https://alliancegenome.org/ is likely to come to an end soon. If you know of anybody looking for help with things like this, please steer them my way. My resume and publication list are on my personal website: https://scottca.in/.
Galaxy Training Networkfigured out how to easily re-order it by @gmod component documented, so we can have sections specific to the individual tools which is more user-friendly I think for folks familiar with GMOD.
will likely merge this soon :) https://github.com/galaxyproject/training-material/pull/4750
New GTN post: GTN ❤️ GMOD
https://training.galaxyproject.org/training-material/news/2024/02/29/new-gmod-topic.html
JBrowse v2.10.2 released, with a new feature to launch the breakpoint split view directly from raw reads https://jbrowse.org/jb2/blog/
I posted this question in the C. elegans slack, but I thought I'd ask here to a different (wider but probably sparser) audience: I went to a non-worm genomics conference this week and was struck by how much #GWAS data was being presented. I’m wondering if the same trend is occurring in your research, and if so, if researchers would be interested in our adding functionality to our #JBrowse2 instance that would allow users to view (while not uploading to anywhere) GWAS data ... 1/3