Greg Fedewa

Have you tried Typora? It's my default if I just want to write some notes without having any bloat.

It might not be a perfect solution for you, but I just finished a project where I used an R kernel and .ipynb notebooks specifically because it then had inline outputs. Worked really well in Position.

I always have to tell myself, the debrief and documentation are part of the task and need to be scheduled as part of it.

All of them and turn it into a mole?

I know, right? And they didn't even want to interview me, either.

If you want it for a group, you could self host Vikjuna, an open source project management app. If it is just for you, Emacs Org-mode is also an option. It can be as feature rich or lite as you want. The main downside is the lack of mobile apps, though.

Python's pathlib has been around since 2012 and I can't believe that every other language hasn't implemented the same idea. It is one of Python's best features.

I would still suggest Quarto, since it is just a superset of markdown. You don't have to render. When I run code on a server, I usually use Posit/VSCode's remote connect to the server and then run the code cells and have the outputs right there. I also like ipynb, but it depends on the language

What features do you need? My personal preference right now is just Quarto and then render it into whatever format you want.

I've been looking for these myself. It isn't a single study, but some of the Zymo standards have been sequenced with all three.

So glad that a feature I've wanted, and then worked on, is finally out!

Run all the bin QC tools now!

compile linux

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Genomic comparison of the temperate coral Astrangia poculata with tropical corals yields insights into winter quiescence, innate immunity, and sexual reproduction Abstract. Facultatively symbiotic corals provide important experimental models to explore the establishment, maintenance, and breakdown of the mutualism be

I am very much not an expert on corals, so I could be wrong here. Bad gene calls could be the cause, but doi.org/10.1093/g3jo... says there are a lot of duplications in the genome.

I am not an expert on TagSeq, but I have debugged a lot of sequencing before. Can you say what species it is (is the genome just repetitive)? Did you remember to deduplicate the reads based on UMIs?

Getting your ears pierced this weekend won't help dispel them

"I think we should have the Mobius parade. It will never stop, never start. It always was and will always be."

I still say "Turn down your radio" to people around me.

An isekai mecha game.

How does everyone keep track of where they left off when reading #QuartoPub book websites? Is there an Quarto or browser extension ? I have a browser bookmark to the main page, but (ideally) I would want some button i click to go to my "bookmarked" page.

I don't understand what you mean, published articles and data should all have DOI numbers that will act as a permanent hyperlink. Books and physical things could be links to a photo attached. If someone is citing a work that can never be verified it probably isn't a good source for a college paper.

Have you thought about requiring all sources to have hyperlinks? You shouldn't need to track anything down if the student already did

One hundred thousand people shouting "arr" preventing you from finishing your opener, The Captains Wife's Lament.

Just a random guess, but 0.008==1/125 . Are these based on some 125 question survey?

On point 1a, are they saying they won't require a data sharing plan? That would be such a huge step backward.

It might only be a small step in the right direction, but did you see @fraserlab.com recent post about trying to fix preprint reviews (they found out the authors weren't being notified) ?

Does anyone know of non-profits, consortiums, labs, or groups that focus on genome sequencing rare/endangered plants? I can't seem to find anything, but it seems like this should exist. I am only finding groups that sequenced a single rare species or two. 🌱🧪 #plantsky #academicsky

That sounds like an awesome postdoc.

Verified résumés could be interesting, but I think the problem is LLMs are being used by real people, but they allow people to tailor and apply to every job they can find. I really dislike take homes as they favor people without families/outside responsibilities.

I have heard this (and that a lot of them look like they are written by an LLM) from a few people, but haven't seen much news on it. If it really is just a flood of some people spamming every job opening, I wonder how that will force the whole process to change.