Nicola Romanò @nicolaromano@qoto.org
Senior lecturer at the Zhejiang-Edinburgh Joint Institute (ZJE) and Edinburgh University.
Undergraduate Programme Director, Biomedical Informatics at ZJE.
I teach #imageanalysis & #dataanalysis with #RStats & #python. I study #heterogeneity in #pituitary (and other) cells.
I'm also very interested in #reproducibility and #openscience.
Joined Oct 2022
@MrHedmad I'm not sure I totally get the point (but haven't read the book!). What is the alternative she is proposing? Also, I'm not totally sure why she argues that human contribution is disregarded, I would argue that it's much more put into focus, but I might be misreading her point.
@lwpembleton I'm wondering if we're so used to HDR and various automatic filters as standard on all phones that when we see a photo like this it looks odd?
Nicola Romanò
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Pretty cool:
My 2022 paper has now been viewed over 10 K times:
Ten simple rules for how you can help make your lab a better place as a graduate student or postdoc
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1010673
Anyone knows where can I find a list of valid types for "Dataset Type" when searching for NCBI GEO Datasets?
The help pages only mention "expression profiling by high throughput sequencing" as an example.
@MylesRyden @terri Yet, we don't teach students how to do science well. A lot of the bad practices that are behind "bad science" could be mitigated by better teaching of statistics, data analysis, experimental design etc.
@lwpembleton It was 2005-2006, had to analyse some data from my PhD and whatever stats software was in the lab (prism likely) felt extremely limiting, so I switched to #rstats!
Coincidentally, it was the time I switched to #fedora and never looked back!
Nicola Romanò
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Been playing around with github copilot workspace and it's quite thought provoking. Basically, file an issue, and it opens a PR for you. Not sure I'd trust it for much more than code brush-ups and minor refactors, but it's been very good so far.
We've gone from
- remembering code / reading the manual
- being good at googling
- using AI / copilots / prompting
- ? discussing code changes
Interesting to see where it goes. I'm not sure where we'll end up.
@Markcarter I'm always a bit skeptical when reading news like this. What exactly will this "AI" do? How will it work in practice? There's a lot of stuff that is sold as "AI" just because it makes some often limited use of a LLM... But in the end turns out to be a glorified chatbot that gives little advantage to whatever the previous system was.
@drmambobob Agree, although I find that too often people don't tell students why they're teaching A and not B. I find that when students are made aware of the rationale for the what's in a course, and of its large idea, then they do understand those choices. Having clear and meaningful learning outcomes for each course and each teaching session is also very helpful. Also, you can teach students how those fundamental concepts form the basis of whatever fancy technology is trending at the moment.
Nicola Romanò
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Our latest: Deep dynamical modelling of developmental trajectories with temporal transcriptomics
- Optimised metabolic labelling for time resolved scRNAseq
- Deep learning (VAE) for RNA velocity
- Predicting expression dynamics with a neural SDE system
Nicola Romanò
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204 Mastodon posts with the #PositConf2024 hashtag so far in my app! Search through them all here, on a Web page that includes NONE of today's advice on how to make Quarto docs or apps look nice 😅
https://apps.machlis.com/shiny/positconf/
@alastairmrushworth I'm surprised violin plots and swarm plots didn't make it in there. But as long as it's not barplots with error bars I'm happy 😀
@markjamesadams oh right, I did not realise that, I guess that makes slightly more sense although it still seems like a terrible move...
@markjamesadams I might be extremely naive but... what's the real selling point for Anaconda compared to other free and lighter alternatives like venv?
Nicola Romanò
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Someone is vastly underestimating academics’ appetency to not pay for things.
https://www.theregister.com/2024/08/08/anaconda_puts_the_squeeze_on/
Nicola Romanò
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Announcing Zotero 7, the biggest update in Zotero’s 18-year history
Nicola Romanò
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Drawing: Possible causes of your problems. I've been appalled at the scenes we've witnessed over the last few days. It's utterly unacceptable that people should have to live in fear because of the colour of their skin.
[Polite comments only, please.]
Nicola Romanò
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I wrote a thing about switching from Windows to Linux for music production. Not a step-by-step guide, but a bunch of (hopefully) helpful info and links for those who might be considering the switch. Will probably also be useful for those new to the whole computer music thing who are interested in Linux as a starting point.
Senior lecturer at the Zhejiang-Edinburgh Joint Institute (ZJE) and Edinburgh University.
Undergraduate Programme Director, Biomedical Informatics at ZJE.
I teach #imageanalysis & #dataanalysis with #RStats & #python. I study #heterogeneity in #pituitary (and other) cells.
I'm also very interested in #reproducibility and #openscience.
Joined Oct 2022
