Thomas Sandmann
@thomas-sandmann.genomic.social.ap.brid.gy
37 followers 4 following 19 posts
Computational biologist, biotech, neurodegeneration, genomics, learning, R, python [bridged from https://genomic.social/@thomas_sandmann on the fediverse by https://fed.brid.gy/ ]
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Reposted by Thomas Sandmann
pepperthevixen.meow.social.ap.brid.gy
Hey there! I'm one of the blind folks who read alt text on here. I'd like to say thank you for adding that so that I can also enjoy images of cartoon animals. A little effort from you means a world of difference for people like me
#accessibility #alttext #blind
Reposted by Thomas Sandmann
jonocarroll.fosstodon.org.ap.brid.gy
Oh, no! My R package {safespace} is in a broken state - won't someone (new to PRs) help me fix it???

I'm renewing my offer to guide newbies through the R package building / fixing / reviewing process during Hacktoberfest - see this post […]
Original post on fosstodon.org
fosstodon.org
Reposted by Thomas Sandmann
Reposted by Thomas Sandmann
jekely.biologists.social.ap.brid.gy
Postdoc position in regenerative biology on "Tracking the cellular origins regeneration" in the @michalis_averof lab in Lyon, France. Fantastic lab, great institute, nice city!
https://www.averof-lab.org/pages/tracman

#postdoc
Reposted by Thomas Sandmann
Reposted by Thomas Sandmann
nonnihil.hachyderm.io.ap.brid.gy
If anyone with an educational nonprofit or school wants a donation of some UR-3 robot arms, get in touch -- my company is getting rid of a bunch and we haven't found any takers with our usual donation recipients.
These are great learning models, mechanically similar to light industrial arms but […]
Original post on hachyderm.io
hachyderm.io
Reposted by Thomas Sandmann
gmcd.bsky.social
Clearly not the most important news coming out of Oregon tonight, but I just added a recession bars example to the tinyplot “Tips & tricks” vignette. grantmcdermott.com/tinyplot/vig... #rstats
tinyplot showing US GDP since 1980 with recessions highlighted in the background
Reposted by Thomas Sandmann
dantheclamman.scicomm.xyz.ap.brid.gy
In July 1927, over 100 people in San Francisco were sickened from eating mussels. Six died. All experienced loss of feeling and tingling starting as little as a few minutes after their meal, which progressed in some patients into paralysis. There was mass terror […]

[Original post on scicomm.xyz]
A microscope image of Alexandrium catenella. It looks like two brownish hamburgers stuck together
Reposted by Thomas Sandmann
potterybyosa.mastodon.social.ap.brid.gy
I’m offering this #virtualworkshop for the second time on Saturday, October 25. If you’ve ever had an interest in working with #clay, I hope you’ll join me. #ceramics used to be a free creative medium but has become an expensive hobby. In this workshop, I […]

[Original post on mastodon.social]
A promotional graphic in portrait orientation. The background is a photo of my hand holding a lump of dark brown clay above my lap. You can see my green skirt below and the bottom of my striped top at the bottom of the frame. The workshop title “Clay Is For Everyone” appears in all caps at the top of the page. Near the bottom is the text “a virtual workshop” and “Saturday, October 25, 2025 1-3pm Eastern”
Reposted by Thomas Sandmann
sundogplanets.mastodon.social.ap.brid.gy
Fediverse! I need some help!

I have a fellowship to go to Aotearoa New Zealand for a few weeks, and also an offer of an additional fellowship to give lectures around NZ. This is INCREDIBLY EXCITING!!

...but I have a lot of animals! And it's going to be […]

[Original post on mastodon.social]
A bunch of brown, black, and white goats happily lounging in the sun on a grassy area next to a wooden fence.  There's also a couple of happy fluffy dogs mixed in, and a small brown horse.  The sky above is blue.
thomas-sandmann.genomic.social.ap.brid.gy
I spent the afternoon with the great interactive https://dbquacks.com/tutorial/1 tutorial, teaching me how to "struggle with and eventually write" working SQL. Lots of fun, very well thought out (and fun!) examples. Hat tip and thanks to @dailydrop.hrbrmstr.dev for pointing it out. #sql […]
Original post on genomic.social
genomic.social
Reposted by Thomas Sandmann
hrbrmstr.mastodon.social.ap.brid.gy
The goal was to show a short but practical @observablehq Notebooks 2.0 data loader in Python to help see how uv managed venvs work great with Observable Desktop and notebook-kit, and the utility of the loaders.

Code on Codeberg: https://codeberg.org/hrbrmstr/ipos
python code at the codeberg URL in the post connected scatterplot in observable plot with three major annotations
thomas-sandmann.genomic.social.ap.brid.gy
@jonocarroll All right, this is impressive - and even more so because you are an extremely experienced R programmer. Thanks for the excellent post!
Reposted by Thomas Sandmann
jonocarroll.fosstodon.org.ap.brid.gy
I Vibe Coded an R Package
and it ... actually works?!?

https://jcarroll.com.au/2025/09/13/i-vibe-coded-an-r-package/

I wanted an #rstats package to exist so I spent $20 and got Claude Code to build it for me.

Plus a shiny app using it: https://jcarroll.shinyapps.io/kanjiexplorer/
Kanji Explorer available at https://jcarroll.shinyapps.io/kanjiexplorer/
Reposted by Thomas Sandmann
stephenturner.us
New blog post: In Google's new paper, "An AI system to help scientists write expert-level empirical software" an AI supposedly "invents" new methods in bioinformatics and infectious disease modeling & forecasting. doi.org/10.59350/ymj... 🧬🖥️🧪
Reposted by Thomas Sandmann
sennoma.chaos.social.ap.brid.gy
Science peeps who are NOT in the USA: biotech is apparently circling the drain here, so I'm wondering about other places. We have two cats, and that's honestly the main reason I haven't focused on ex-US jobs until now.

I'd be grateful for any and all information on moving to where you are for a […]
Original post on chaos.social
chaos.social
Reposted by Thomas Sandmann
stephenturner.us
I just (re-)started the Charlottesville area R Users (CRU) group. If you're in the Charlottesville area come out to CRU's first in-person meetup Sep 24 at 6pm at the UVA School of Data Science. #Rstats

More info, and register (free) here: luma.com/9zespmac
First CRU meetup · Luma
Welcome to the inaugural Charlottesville R Users (CRU) meetup! In this first event we'll discuss the format and goals of CRU, followed by a short technical…
luma.com
thomas-sandmann.genomic.social.ap.brid.gy
This week I learned how to manage project-specific R libraries with {rv}, a relatively new, declarative alternative to the well-established {renv} R package: https://tomsing1.github.io/blog/posts/rv/ . {rv} is a command line tool, written in rust, and I really like how it leverages repository […]
Original post on genomic.social
genomic.social
Reposted by Thomas Sandmann
Reposted by Thomas Sandmann
futurebird.sauropods.win.ap.brid.gy
What are your "comfort reads" ?

For me it's Alastair Reynolds ... when he's doing the "cyber noir" thing. I'm reading "The Prefect" again and it's just such a nice escape. One of the major plot points is a very relatable bit about doing a system upgrade and the world ending because basically […]
Original post on sauropods.win
sauropods.win
Reposted by Thomas Sandmann
leafyericscott.hachyderm.io.ap.brid.gy
*Finally* got around to testing new {purrr} and {mirai} features on the #UniversityofArizona #hpc and it is such a big step forward for researchers who would prefer not to leave their R comfort zone like myself. Here's a gist that you can run from an interactive session to launch SLURM jobs as […]
Original post on hachyderm.io
hachyderm.io
Reposted by Thomas Sandmann
jeskowagner.genomic.social.ap.brid.gy
We just published a new Python package for the single-cell analysis of morphological profiles! If you do microscope of cell populations and wish there were better solutions than averaging cell populations, now is the time! Built on the scverse, we bring analysis of imaging data into the […]
Original post on genomic.social
genomic.social