I got up pretty early to watch the WormBase workshop at #worm23 (the international c. elegans meeting) but they aren't streaming any of the workshops 😢
I can at least post a link to a video of my section of the workshop, an intro to #jbrowse2 at #WormBase: https://youtu.be/8IBOotP48Dw

@thebiologistisn I was thinking about the comparison of 2 similar assemblies and came up with a potentially useful visualization. As a test set I used the C. elegans N2 assembly (original) and the VC2010 assembly (a resequencing of the same strain, so it should be very similar). I already compared these 2 with #minimap2 and have that data on #WormBase's #JBrowse2. I wrote a simple script that would take a sorted paf file (minimap2) and find gaps. This is the result: https://wormbase.org/tools/genome/jbrowse2/?session=share-SSR4hA6gzo&password=TFpjE

#biocuration2023 parallel session "AI and Text Mining" starting with Kimberly Van Auken: community curation and artificial intelligence are solutions to scale #biocuration. ACKnowledge (Author Curation to Knowledgebase) combines them at #WormBase https://afp.textpressolab.com/about

I know it. Change isn't easy. I literally just went through it last month with #WormBase, where I shut of a service that has been running for 20 years (and found out that there was one bit of functionality not replicated elsewhere--oops).

BUT. I'm not thrilled with #Gitter's migration to #matixDotOrg. Their migration documentation really is lacking WRT desktop clients (maybe they aren't ready yet? Good time to pull the trigger then, yah?). Anyway, I'm sure it will get better.

I’ve been in #DigitalCommunication / #ScienceCommunication full-time for about six years now.

Prior to that I was a #genomics researcher and I spent about 20 years working on various research and infrastructure projects (big love for #WormBase) as well as teaching bio students to #code.

My science background remains useful in making sense of all of the comms data that I have now.

Hello Mastodon friends! If you are a helminthologist/parasitologist, you have probably used #WormBase ParaSite (https://parasite.wormbase.org/index.html)!

The WormBase crew are currently looking for grant holders to endorse a new joint NIH/BBSRC initiative for funding to keep this wonderful platform continuing for the next few years! Please help by signing the linked letter of support by Prof Rick Maizels at Glasgow Uni. With thanks from the WormBase Team: https://docs.google.com/forms/d/e/1FAIpQLScxoNM1Zh9LNFPeIdTUt1Rl5r9XFsVXkS0El0DIzGxGkM-K1Q/viewform

#parasitology #helminthology

@jogoodma Yeah, #WormBase 's GBrowse is going away at the end of January as well. It's been a heck of a workhorse and can go out to pasture now. Time to move on to #JBrowse2 https://jbrowse.org/ !

#Introduction (part 1)

Hi! I’m a former #genomics researcher. My PhD (that I started in 1996) was spent looking at the very first sequenced eukaryotic genomes (yeast and worm).

I spent about 20 years of working on various research and infrastructure projects (big love for #WormBase) as well as teaching bio students to #code.