I've been using the #salvo webserver for quite some time now and really like it. The way you can inject and share state along a route tree is very useful for access control. For orm I've been using #seaorm and I can't get used to it. #Tokio's #toasty seems to have a much better form factor. #rust

#Ai has been great for writing code when feeding a newborn/being nap-trapped. I can slowly type with one hand what to do and then review what comes out. #kiro has been amazing for this due to the way it drafts up requirements and tasks.

I've been using AI more for some frontend experimentation and often times the code looks good enough. However, how often do you see caveats in the actual documentation about risks of using certain methods and security considerations. AI workflows will completely hide this from users. #ai

This is going to sound passive aggressive but I am delighted by the diversity of opinion in synbio today

People who think using fermentation to make food protein is an over-ambitious pipe dream

People who think genetic super-astronauts for mars is a near-term R&D priority

You can’t eat microchips. Social media can’t heal the sick. B2B SaaS will never love you

The final measure of any technology is the value it creates, directly or indirectly, for living things. In this sense, biology is everyone’s mission

Okay hear me out, what if building your protein model was a first person horror survival experience??

#MolecularNodes #b3d #GeometryNodes 🧪

I am not going to call this a Bluetorial, because I do not want to sully that term (which, at least I, find joyful).

Let’s call it a Orwellial.

There's a huge need for more visualization options for #pangenomes. My coworker recently made this terminal graph view for gen (github.com/ginkgobiowor...) that I'm loving. Here's an example of a simple import of a genbank file and exploring the changes in the terminal #ratatui #rust

I've been working a lot with the GFA format and I find it so odd how many bioinformatic formats are text based. I think a large part of it is because it's the simplest thing to parse, but this led to so many broken parsers that work for the application that person happened to care about.

If you have 20 minutes to spare and want to get up to speed, watch this video. Very helpful to understand how rigorous and fair the indirect cost process actually is.

www.aau.edu/key-issues/i...

It’s been a tough few weeks. My 10yo daughter was diagnosed with a very rare, aggressive cancer called interdigitating dendritic cell sarcoma (IDCS). I’m reaching out to identify clinicians/patients who have encountered pediatric IDCS or other (non-LCH) dendritic or histiocytic sarcomas cases.

How population stratification makes environments look like genes. A short 🧵:

This pretty much settles it: we're entering the era of low-cost, on-demand binders for everything

Excited to see what people build now that "inject a llama with some junk and bleed it a month later" is no longer the cutting-edge tech
www.nature.com/articles/s41...

Excited to share a preprint for (w/ @benlangmead.bsky.social) our new tool, Mumemto, on biorxiv! Mumemto finds multi-MUMs across pangenomes (i.e. mummer but for pangenomes). It can rapidly visualize synteny, identify misassemblies, and accelerate core genome and multiple alignment, highlighting SVs.

After a few months of #rust, I've found myself to be almost as productive as I am in #Python. I'm reminded of the posts about WhatsApp running on a handful of servers supporting billions of users and think about how many horizontally scaled servers running interpreted code can be replaced w/ rust.

We've been developing a tool exploring some ideas with graph genomes and version control for genetic engineering. github.com/ginkgobiowor.... Some random thoughts on this journey. #pangenome #rust #bioinformatics

Very excited to see Movi (by @mohsenzakeri.bsky.social) now out in iScience: www.cell.com/iscience/ful.... Movi builds on the "move structure" pangenome index, a compressed full-text index and close cousin to r-index. Compared to r-index, the move structure is simpler and more cache-efficient.