@lgatto@fosstodon.org
@lgatto@fosstodon.org avatar

lgatto

@lgatto@fosstodon.org

Inclusive, open and reproducible research, computational biology, omics, emacs, R, running, parenting.

Software/rstats package development (mostly for omics/proteomics/mass spec) are public on my own github or on RforMassSpectrometry: https://github.com/RforMassSpectrometry/

I am also interesting in teaching and pedagogy - see this post for my latest thoughts on the topic https://lgatto.github.io/ungrading/.

Prof at UCLouvain in Brussels.

This profile is from a federated server and may be incomplete. Browse more on the original instance.

lgatto, to random
@lgatto@fosstodon.org avatar

New Dutch right-wing coalition to cut research, innovation, and environmental protections. Four parties hammer out agreement filled with bad news for scientists.

https://www.science.org/content/article/new-dutch-right-wing-coalition-cut-research-innovation-and-environmental-protections

lgatto, to random
@lgatto@fosstodon.org avatar

So far, I had only read car and cdr and always pronounced the latter cee-dee-ar.

I have heard it for the first time today and am quite surprised and amused about its actual pronunciation: /ˈkʌdər/

Sounds a but like cuddle to my ear :-D

Hear it here

https://en.wikipedia.org/wiki/CAR_and_CDR

lgatto,
@lgatto@fosstodon.org avatar

@Mehrad

yes, or head and tail, so much easier.

But I guess they were thinking in terms of register/address, and it made sense. Nowadays, were are so much further from the bare metal, that it stopped making sense.

And /ˈkʊdər/ sounds like cuter to me - even better :-D

gvwilson, to random
@gvwilson@mastodon.social avatar

Somebody asked a while back why I've published my last few books with Taylor & Francis. Well, I got mail a month ago from a student in Nigeria who was enjoying https://third-bit.com/sdxpy/ but didn't have reliable internet access, so could he get a PDF to read offline? Three weeks and some back and forth with DHL later, he has a physical copy free of charge. That's why.

lgatto,
@lgatto@fosstodon.org avatar

@gvwilson did T&F send him a hard copy free of charge? Did they do it upon your request?

daviwil, (edited ) to random
@daviwil@fosstodon.org avatar

If a technical book was free to read on the web under a Creative Commons license, would you still buy a digital copy if it were made available in other formats? (Think PDF, ePub, Info, etc)

lgatto,
@lgatto@fosstodon.org avatar

@daviwil

Unlikely, but I would buy the print version.

lgatto,
@lgatto@fosstodon.org avatar

@daviwil yes, indeed.

If I were to buy another digital version, it would be more as a way to make a donation, rather to actually get/own/read the epub/pdf...

philipdutre, to random Dutch
@philipdutre@mastodon.online avatar

https://www.demorgen.be/nieuws/grensoverschrijdend-gedrag-in-louvain-la-neuve-het-is-een-onveilige-plek~b07b9d15/ #universiteit #onderzoek #hogeronderwijs

lgatto,
@lgatto@fosstodon.org avatar

@philipdutre

This is poor journalism and/or click bait. It reminds me of the typical bullshit one comes across in the British tabloid press.

From the title: no, LLN is not an unsafe place. On the contrary, and hardly more so than many cities in Belgium, and Flanders.

From the first part I could read (I don't have access to the whole article) this is selected information that is presented in a biased form - typical from the tabloid press mentioned above.

[...]

lgatto,
@lgatto@fosstodon.org avatar

@philipdutre

There might be more useful information with links to facts in the remainder of the article, but at this point it probably doesn't matter any more, as the desired goal, to depicted a biased picture and steer up controversy has already been reached.

lgatto, to random
@lgatto@fosstodon.org avatar

I miss the time when princes and princesses contacted me to transfer their fortune.

Now, I mostly get editors requesting my papers.

sje, to guix

Here are some great tutorials on using Nix with R versions. Thank you @brodriguesco

https://www.brodrigues.co/tags/nix/

and videos, e.g. https://www.youtube.com/watch?v=R3t83-2aNwY

I just tried getting started with and despite the great systems crafters material provided by @daviwil on Guile, found installation of Nix was much easier, and seems to have more up-to-date package ecosystem than Guix.

Worth a look @lgatto

lgatto,
@lgatto@fosstodon.org avatar

@brodriguesco @sje @daviwil

it's often one of ESS or org-mode, or both.

lgatto,
@lgatto@fosstodon.org avatar

@sje @brodriguesco @daviwil I have been reading about guix and nixos lately.

I have installed guix on my old laptop for now, but haven't had time to explore and play with it much. What made me go the guix is the lisp syntax for code and config.

It's probably only a matter of time before I get a go with nixos :-)

lgatto,
@lgatto@fosstodon.org avatar

@sje @brodriguesco @daviwil

and {rix}, of course

lgatto, to random
@lgatto@fosstodon.org avatar

What you be a good programming project for a teenager (and his dad) who likes maths to learn coding in python? Something to work towards over several weeks?

He has some basics, but nothing like an interesting project to learn, practice and enjoy programming.

@lowrankjack @sjodogne - any suggestion? What would be a interesting first programming project for first year students in CS?

chartgerink, to random

So it is more than abundantly clear has fundamental issues - what do you think we should be doing about it?

lgatto,
@lgatto@fosstodon.org avatar

@chartgerink

Peer review has issues (one being it doesn't scale), but at a small scale, it is also a great tool to exchange with fellow experts.

The problem isn't peer review itself, it's that it is used, as is, with all its flaws, as a gate keeping tool by the traditional (commercial) publishing enterprise, and thus considered, often too uncritically, as an validation instrument.

daviwil, to random
@daviwil@fosstodon.org avatar

A computer you're not empowered to fix is destined for the trash dump.

lgatto,
@lgatto@fosstodon.org avatar

@sje @daviwil @sqrtminusone me too. The only thing that has stopped me from installing guix on my main desktop is how smoothly manjaro has been running on it for over 5 years.

lgatto, to random
@lgatto@fosstodon.org avatar

What would you change in your life if you had guaranteed basic income for yourself and your family? What would you do if there was no requirement to work for money to provide basic needs?

lgatto,
@lgatto@fosstodon.org avatar

@pjacock What's UBI?

lgatto,
@lgatto@fosstodon.org avatar

@deshipu thanks. I'm also in that same privileged category.

lgatto,
@lgatto@fosstodon.org avatar

@maddy2101 thank you. Yes, farming, or rather more contact with nature would also be something I would like to do.

lgatto, to random
@lgatto@fosstodon.org avatar

More added value from traditional publishers - from Springer:

Information about a current data incident involving your email address... Our customer database at Scientific Reports was accessed by an unauthorised person on November 19, 2023.

😠

deevybee, to random
@deevybee@mastodon.social avatar

Further evidence that the pressure in MDPI for fast turnaround is compromising article quality: https://pubpeer.com/publications/411821120F65A4609F4665C967E782#2

lgatto,
@lgatto@fosstodon.org avatar

@deevybee I've had a couple of similar experiences in the past, albeit not with mdpi, but more traditional publishers. I found it very frustrating - editors should get back to reviewers who requested major changes, even if they are of a different opinion at the end.

I should also publicly write about theses experiences. Should I take into consideration that the reviews aren't public?

lgatto, to bioinformatics
@lgatto@fosstodon.org avatar

New bioinformatician position open in the lab, to work as part of the e-OMIX team:

  • Establish bioinformatics pipelines for preprocessing omics data.
  • Adhere to interoperability standards established by the FIHR consortium.
  • Integrate different types of omics data.
  • Conceive and automate data analyses pipelines.
  • Develop/contribute to #Bioconductor packages.

More details

#job #bioinformatics #proteomics #genomics #transcriptomics

Elendol, to random
@Elendol@hachyderm.io avatar

The more I know about the insides of a ThermoFisher raw file from a mass spectrometer the more I wish I didn't start digging around binary files... #teammassspec

lgatto,
@lgatto@fosstodon.org avatar

@Elendol interesting. How do you get to do that? Are you using vendor libraries on Windows, or through mono on another OS?

lgatto, to random
@lgatto@fosstodon.org avatar

I hear that there's a genuine exodus from X/Twitter, which I think is great. But on the other hand, I don't get why many embrace Bluesky. Haven't we learnt a lesson from Twitter? Why not invest in a more open platform?

I have to confess that I have not tried Bluesky (and don't plan to for the reasons cited above) - it have its advantages. But still, no cool UI or feature, or even budding community is worth my time and efforts when we have seen what's at stake.

lgatto, to random
@lgatto@fosstodon.org avatar

Interesting from the latest @protonmail blog:

Email is more than a means of communication — it’s your identity, and that’s worth protecting

https://proton.me/blog/email-is-your-digital-id

  • All
  • Subscribed
  • Moderated
  • Favorites
  • •
  • JUstTest
  • InstantRegret
  • mdbf
  • osvaldo12
  • magazineikmin
  • GTA5RPClips
  • rosin
  • thenastyranch
  • Youngstown
  • cubers
  • slotface
  • khanakhh
  • kavyap
  • DreamBathrooms
  • anitta
  • Durango
  • everett
  • ethstaker
  • cisconetworking
  • Leos
  • provamag3
  • modclub
  • ngwrru68w68
  • tacticalgear
  • tester
  • megavids
  • normalnudes
  • lostlight
  • All magazines
    •