Florian Huber
Professor for data science at HSD, @zdd-hsd.bsky.social
| ML fan & critic | current research mostly #datascience, #machinelearning, #cheminformatics #dataviz #nlp | ✨ #openscience #openaccess #rse | living data point 🚲
- Reposted by Florian HuberDas bayerische Finanzministerium will weiterhin Microsoft-Produkte einsetzen und dafür einen millionenschweren Vertrag verlängern. Die Opposition will eine Abkehr vom Tech-Riesen und fordert „digitale Souveränität“. Doch auch das könnte sich als Bumerang erweisen. netzpolitik.org/2026/bayeris...
- Reposted by Florian HuberThis is an excellent analogy, because my recollection from grade school is that the pen on the right looks fun and exciting, and then you play with it for a few minutes and realize it's not actually useful for anything and in fact makes some tasks more cumbersome, and never think about it again.
- Reposted by Florian HuberThe Danish Ministry of Digital Affairs is moving away from Microsoft and switching instead to Linux and LibreOffice www.heise.de/news/Von-Wor...
- Considering I again did not receive the Nobel Prize for Economics, I no longer feel an obligation to pay back my debts.
- I sometimes wonder how many more signs we (Europeans) need before we go all-in on European-based digital infrastructure. Well, here is yet another report telling us why we shouldn't feel too comfortable when fully relying on US-based services: www.linkedin.com/posts/f-hube... #DigitalSovereignty
- I had a fantastic short trip to @w-u-r.bsky.social at the end of November. First, to attend and celebrate the PhD defense of Niek de Jonge and second, to join the Mini-Symposium organized by @jjjvanderhooft.bsky.social ! See more on LinkedIn: www.linkedin.com/posts/f-hube...
- Reposted by Florian HuberOut now! xcms in Peak Form: Now Anchoring a Complete Metabolomics Data Preprocessing and Analysis Software Ecosystem doi.org/10.1021/acs.... with Phillipine and @jorainer.bsky.social (EURAC), @metabomichael.bsky.social, Hendrik and Norman from @ipbhalle.bsky.social, @janstanstrup.bsky.social, et al.
- Reposted by Florian HuberRelaunch unserer Vortragsreihe "ZDDenkanstöße". Zum Start mit Sabrina Großkopp --> www.linkedin.com/posts/zdd-du... Über die nächsten Wochen folgen weitere Vorträge: zdd-duesseldorf.de Kommt gerne vorbei!
- Reposted by Florian HuberSuper useful new feature! I've started to recommend plotnine to everybody who does data analysis in python and needs a plotting solution, so this is very welcome.
- Reposted by Florian HuberBiology is much more complicated than most non-biologists can imagine. And AI is not going to change this anytime soon. blog.genesmindsmachines.com/p/we-still-c...
- Impressive milestone by @europarl.europa.eu to ban "veggie-burger" and other great dangers to humanity. 100 millions of confused meat-eaters can now finally navigate the menus again.
- New #matchms release (0.31)🚀 With functionalities that were on our TODO list for a looooong time: Flash Entropy and BLINK scores! The new "FlashSimilarity" allows computing modified cosine, spectral entropy etc., about 100x faster (or more if you use Linux). #Python #opensource #massspec
- Special thanks to @julianpollmann.bsky.social and Niek de Jonge for code and code reviews! GitHub: github.com/matchms/matc... #opensource #RSE #researchsoftwareengineering
- Reposted by Florian HuberReady for the 4th International Summer 🌞 School on Non-Target Metabolomics at DTU - Technical University of Denmark #Copenhagen organized by Martin Hansen & Scott Jarmusch with a team of local and international helpers and instructors 😎 Thanks Lone Gram for opening the school 🙌 #CompMetabolomics
- Reposted by Florian HuberToday's #RDKit blog post is a heartfelt plea for clearer communication. greglandrum.github.io/rdkit-blog/p...
- Reposted by Florian HuberBREAKING NEWS: #AI coding may not be helping as much as you think "But for now, the disconnnect between what coders thought they would get out of the tools efficiency-wise and what they actually did get out of them is cause for reevaluation." ~ @garymarcus.bsky.social garymarcus.substack....
- Reposted by Florian HuberParis cycling numbers double in one year thanks to massive investment and it’s not stopping. A visionary urban policy lead by @annehidalgo.bsky.social 💫🫶🏻🙏🏻 momentummag.com/paris-cyclin...
- Hier in @duesseldorf.bsky.social wird vorerst lieber noch jeder Parkplatz verteidigt... (und leider nicht nur hier)
- Paris setzt auf grüne Dächer, weniger Parkplätze und Stadtwälder – und verzeichnet dort während Hitzewellen deutlich kühlere Temperaturen. Stadtchefin Anne Hidalogo rettet Leben, weil sie die Klimakrise ernst nimmt. Ist so. www.derstandard.at/story/300000...
- Reposted by Florian HuberI don’t think anyone is prepared for what they just did w/ ICE. This is not a simple budget increase. It is an explosion - making ICE bigger than the FBI, US Bureau of Prisons, DEA,& others combined. It is setting up to make what’s happening now look like child’s play. And people are disappearing.
- Reposted by Florian HuberHey Verwaltungs-Digitalisierer:innen! Am 17. Juli starten wir eine neue AG zur Verwaltungsdigitalisierung. Eure Expertise aus dem öffentlichen Dienst ist gefragt! Gemeinsam gestalten wir die Zukunft der öffentlichen, digitalen Verwaltung 💪 d-64.org/veranstaltun...
- Reposted by Florian Huber🔓Read in our MS Metabolomics themed collection, a #OpenAccess review from Kevin Mildau, Henry Ehlers, @jjjvanderhooft.bsky.social et al. at @w-u-r.bsky.social @tuwien.at covering effective data visualization strategies in untargeted metabolomics #natprod Find it here🔽
- @jorainer.bsky.social and @philouail.bsky.social gave a great overview of the ecosystem around #RforMassSpectrometry and #XCMS! #MetSoc25 I am super glad they now also provide options to combine with #Python and #matchms (thanks🙏)
- Reposted by Florian Huber📢 Poster 1001 at #MetSoc2025: Marilyn De Graeve on our #SpectriPy #rstats package to integrate #python and #rstats packages for #MassSpec data analysis . TODAY
- Reposted by Florian HuberHi, in case your phone didn't pick up the QR code to the slides of my Hitch-Hikers Guide to Computational Metabolomics talk this morning at #Metabolomics2025, featuring #xcms, #massbank, not #metfrag but #CASMI and #MetFamily, please find them at doi.org/10.5281/zeno...
- Great keynote by @sneumann.bsky.social at #MetSoc25, strongly advocating for #opensource , data-sharing, and making things interoperable. Glad to also spot #matchms in this universe :)
- Reposted by Florian HuberProud of Niek de Jonge who did a fantastic job in presenting his work on cross-ion mode spectral similarity scoring! 😎 👏 Work with Florian Huber @me-datapoint.bsky.social #metabolomics #CompMetabolomics #MetSoc25 #MS2DeepScore
- New preprint out! 1/4 @julianpollmann.bsky.social and I went down several rabbit holes to assess some commonly used molecular fingerprints. Bottom line: For large datasets, make an effort to select suitable settings. "We used Tanimoto" is not good enough. --> www.biorxiv.org/content/10.1...
- 2/4 We focused on weaknesses of the fingerprints. Many show frequent duplicates, so same fingerprint for different compounds. Most problematic: this can include *very* different compounds ending up with identical fingerprints. - MAP4 >> Morgan-type >> daylight - count >> binary #cheminformatics
- 3/4 A huge issue is bit collisions. Fingerprints with a high bit occupation (RDKit, MAP4) often lead to (1) arbitrary misinterpretations, (2) shifts to high Tanimoto scores, (3) very different handling of small and large molecules. --> Consider using sparse fingerprints! --> Morgan >> MAP4 / RDKit
- 4/4 We also highlight options for count fingerprints, such as log-counts and IDF weighted counts. The latter can be used to adjust the bit importance to a dataset of your choice. An example use-case are chemical space visualizations. Preprint: www.biorxiv.org/content/10.1...
- Good start for me at #metabolomics2025 with a hands-on workshop on MS2LDA by Jonas Dietrich, Rosina Torres Ortega and @jjjvanderhooft.bsky.social.
- Went by train to #Prague for #metabolomics2025. These are the kind of moments that remind me how great the European project is. No border controls, no visas. Just a train following a river to the neighboring country.
- Reposted by Florian HuberOrwell’s 1984, but with LLMs
- Da kann der Bürgermeister @duesseldorf.bsky.social noch so oft die "Fahrradhauptstadt" (🥹🤭😭) herbeibeschwören... es braucht dann doch ein bisschen mehr als ein paar Kleckse Farbe. #Düsseldorf weiterhin konstant bei 4- im #ADFC Klimatest. Läuft. @adfcnrw.bsky.social @adfc-duesseldorf.de
- Hier alle Ergebnisse: fahrradklima-test.adfc.de/ergebnisse (Besonders von Ruhrpott bis Köln ist es leider ziemlich traurig)
- Reposted by Florian HuberAt #ASMS2025, we presented a next-gen workflow pairing the #timsMetabo MoRE (Mobility Range Enhancement) with #mzmine and #DreaMS Compared to conventional LC-MS2, the data delivered: - 84% more detected features - 5.7× more MS² spectra - 3× more spectral matches Read the full poster to learn MoRE
- When you prepare lesson material while being hungry... (added some text edits and more sketches/figures to the NLP chapters of the "Hands-on Introduction to #DataScience with #Python" textbook) florian-huber.github.io/data_science... #OpenScience #Teaching #CCBY
- Reposted by Florian HuberLook at the gender breakdown of who speaks in popular films!
- Reposted by Florian HuberLoving this: "The Copilot Delusion" deplet.ing/the-copilot-delusion/
- Reposted by Florian HuberOpenAI just updated ChatGPT to be able to use RDKit, a cheminformatics Python package. OpenAI's president says this makes ChatGPT "useful for scientific work across health, biology, and chemistry," but it is hilariously still not good at chemistry (🧵) #chemsky #AI ⚗️🧪🖥️
- New release of my "Hands-on Introduction to Data Science with Python" textbook! Contains many text edits and figure updates. For instance, in the sections on Clustering and Machine Learning. All fully #opensource and #openaccess. Figures are #CCBY. --> florian-huber.github.io/data_science...
- Reposted by Florian Huber[Not loaded yet]
- Great thing about working in "Data Science" is working on so many different fun projects and topics! Til Hunke, a master student supervised by Jochen Steffens and me, used NLP tools to analyze the lyrics of pop songs in the German charts from 1954 to 2022. --> journals.sagepub.com/doi/10.1177/...
- Reposted by Florian HuberBreaking News: Harvard rejected the Trump administration’s demands, including that it submit to monitoring and reduce the power of faculty and students.
- Reposted by Florian Huber[This post could not be retrieved]
- Zustand: Krise. --> Schlussfolgerung: Investitionen in Bildung, Transformation, Zukunft (+3,5% jährlich für Hochschulen, @regierungbw.bsky.social) oder aber: --> Schlussfolgerung: Sparen an Bildung, Transformation, Zukunft (- 5% für Hochschulen #NRW #CDU + @gruene-nrw.de ).
- I would say triumph.
- Reposted by Florian HuberAs someone who did not finish his PhD speaking at Universities is always a bit weird. Strange mix of feelings of triumph and failure.
- Reposted by Florian HuberDie Vorbereitungen für die Einweihung des #ZDD laufen auf Hochtouren! Wir freuen uns auf morgen.
- Here is a short blog post on the typical data science workflow (if something like that even exists). Happy to take any feedback or suggestions. --> medium.com/@f.huber/wat... #DataScience #Python #Teaching
- Reposted by Florian HuberColumbia University has failed to defend academic freedom & freedom of speech & allowed a great institution to be bullied & extorted into submission by an administration hellbent on contorting higher education to their will. The AAUP condemns this capitulation. We can & must fight back.
- Reposted by Florian HuberColumbia’s capitulation is so disappointing. No statute authorized the Trump administration to make these demands, and many of them implicate or encroach on the constitutional freedoms of students, faculty, and the University itself. 1/ www.nytimes.com/2025/03/21/n...
- @jjjvanderhooft.bsky.social sharing his vision on #matchms during our developer workshop @zdd-hsd.bsky.social. #opensource #Python #massspec
- #matchms workshop in full swing! Great fun to work with this fantastic group of people on improving, expanding, applying matchms for handling #massspec data in #Python.
- Reposted by Florian Huber
Wir als @netzwerkrecherche.org weisen die Unterstellungen der CDU/CSU zurück und werten die Kleine Anfrage mit den 551 Fragen als einen Versuch, Zweifel an der Gemeinnützigkeit unseres Vereins zu säen. Wir halten das für eine gefährliche Entwicklung. Mehr: netzwerkrecherche.org/blog/stellun... - Reposted by Florian Huber💥The Netherlands' largest pension fund, has sold its shares in Tesla, Meta, and Alphabet (Google). The fund with US $569 billion equivolent in assets is "directing more money to companies and projects that help to improve society and the environment." #Divest www.reuters.com/markets/euro...
- Reposted by Florian HuberScience is for everyone. docs.google.com/forms/d/e/1F...
- Reposted by Florian HuberThis is fascism.
- Reposted by Florian HuberMitschnitt hier www.ardaudiothek.de/episode/wort...
- Reposted by Florian HuberThe CHI Human-Centered Explainable AI Workshop is back! Paper submissions: Feb 20 hcxai.jimdosite.com
- Another good reality check of yet another updated version of a current chatbot by @garymarcus.bsky.social --> garymarcus.substack.com/p/chatgpt-in...
- Shows me once more that current LLMs are -conceptually- not great for giving truly smart answers. The focus during training is rather on *appearing smart on average*. Benchmarking practices (and model concepts) will have to change a lot before we see something much more reliable (I think).
- Reposted by Florian HuberFragmentNet: Adaptive Graph Fragmentation for Graph-to-Sequence Molecular Representation Learning arxiv.org/abs/2502.01184 #compchem
- I missed sharing that our finished revised #MassSpecGym paper is now online: openreview.net/forum?id=AAo... This was an extremely nice collaboration initiated by @roman-bushuiev.bsky.social at a #Dagstuhl meeting last year. Can't wait to see how people will tackle the posed challenges!
- What an intensely sad moment in German #politics. First time in the post-war era that a democratic party voluntarily does politics with the extreme-right. All differences aside, this has been a key red line for a long time (and for very good reasons) among democrats.
- Reposted by Florian HuberIch übersetze mal die Kernbotschaft des Unionsantrags an Menschen wie mich: Du wirst wenn es nach uns geht immer Bürgerin zweiter Klasse bleiben. So richtig „deutsch“ wirst du nie sein. www.zeit.de/politik/deut...
- Reposted by Florian HuberNew #mzmine release out now! Matching millions of reference spectra against thousands of samples was never faster. Go and test it today. Download: github.com/mzmine/mzmin... youtu.be/AFv55sUn9Lg
- Reposted by Florian HuberThe tech giants are so eager to comply in advance
- Seems like academic X/Twitter is now officially done: www.nature.com/articles/d41... Time to change the bird button against the butterfly one @nature.com !
- Reposted by Florian Huber
- Reposted by Florian HuberPlease welcome @scadsai.bsky.social on bluesky! We at ScaDS.ai are a federally funded artificial intelligence research center with headquarters in Dresden and Leipzig, Germany!
- Bisschen mehr #Paris wagen, @duesseldorf.bsky.social ?
- Air pollution has dropped significantly in #Paris in the last 15 years. Mayor @annehidalgo.bsky.social’s leadership has traded car space for green space, safe bike space, kid space.. and traded pollution for people. Good trade.
- Seeing the projects students realized with current #machinelearning techniques was fun! (many of the students started merely 2 years ago completely from scratch) Projects were done in the "Advances in AI" project with Dennis Müller.
- Reposted by Florian Huber#WissXit: Wissenschaftliche Institutionen verlassen Plattform X Mehr als 60 deutschsprachige Hochschulen, Universitäten und weitere Forschungsinstitutionen haben sich zusammengeschlossen, um ein Zeichen zu setzen: Gemeinsam verkünden sie, ihre Aktivitäten auf der Plattform X einzustellen. #exit
- Washington Post Cartoonist Quits After Jeff Bezos Cartoon Is Killed www.nytimes.com/2025/01/03/b...
- Reposted by Florian HuberHi #TeamMassSpec! #FeMS+ has joined BlueSky! Please share and get the word out so we can build up a base here.
- Reposted by Florian Huber🚨 Job alert 🚨 IT:U is hiring 5 professors (open rank) in Data Science, very broadly defined! Focuses include (among others): 1. Theoretical Foundations of Data Science 2. Data Science in Biological Systems 3. Data Science in Human Mobility it-u.at/en/careers/p... 1/2
- Reposted by Florian HuberDie #HHU hat entschieden: Wir vollziehen den #eXit. Unser Account auf X bleibt nur noch sichtbar, um Missbrauch unseres Namens zu verhindern. Interaktionen wird es keine mehr geben. Stattdessen setzen wir mit weiteren wissenschaftlichen Institutionen ein gemeinsames Signal. 1/2
- Perfect reminder that no single person in this world should be allowed to have such wealth and thereby power.
- I'm glad that I was part of this fun and super productive cooperation that @roman-bushuiev.bsky.social initiated at Dagstuhl this year! #massspec #openscience
- European Federation of Journalists (EFJ) says "it can no longer ethically participate in a social network that its owner has transformed into a machine of disinformation and propaganda" and stops using X. europeanjournalists.org/blog/2024/11...
- It took us quite a while... not easy with most authors undergoing career switches (me, too). But finally the last bit of my postdoc work with @marileend.bsky.social is now published in @biophysj.bsky.social. #microtubules with EB3 growing against rigid barriers. --> www.cell.com/biophysj/ful...
- This work was done with Maurits Kok and Svenja Kalisch. It contains in-vitro experiments, simulations and mathematical modeling. Maurits is the lead author and did the final, very complex experiments, and also worked on code and the mathematical model.
- Reposted by Florian HuberHow to visualize and communicate #metabolomics data: "Effective data #visualization strategies in untargeted #metabolomics." From @me-datapoint.bsky.social @jjjvanderhooft.bsky.social et al. doi.org/10.1039/D4NP...
- Reposted by Florian HuberGood news everyone! A new version of graph-tool is just out! @graph-tool.skewed.de graph-tool.skewed.de Graph-tool is a comprehensive and efficient Python library to work with networks, including structural, dynamical, and statistical algorithms, as well as visualization. 1/N #networkscience
- Reposted by Florian HuberTickling, jokes or misfortunes—each triggers laughter, but not all laughter is the same! Researchers from the University of Amsterdam & the eScience Center used machine learning to reveal that tickling-laughter is uniquely primal. Read more about this project! www.esciencecenter.nl/news/decodin...
- Enjoyed exploring the beautiful map of #bluesky (from 2024-11-07) from @syntacrobat.xyz! --> aurora.ndimensional.xyz
- Reposted by Florian HuberI recently wrote a primer on UMAP for Nature Reviews Primers. If you are looking for an overview of the method, a getting started primer, or best practices it is a good place to start. rdcu.be/d0YZT
- Delighted that a project that took shape within a #machinelearning workshop at the @esciencecenter.bsky.social and which was initiated and led by #RozaKamioglu and #DisaSauter led to a data analysis of human #laughter sound --> royalsocietypublishing.org/doi/10.1098/... #OpenAccess #DataScience
- I guess #laughter is something many people don't get too much from the news lately. That might explain why this research work is covered fairly broadly right now. For instance in the @theindependent.bsky.social --> www.independent.co.uk/news/science...
- Reposted by Florian HuberLong-context xLSTM models of DNA, proteins, and chemicals. @smdrnks.bsky.social @phseidl.bsky.social @gklambauer.bsky.social arxiv.org/abs/2411.04165
