Thijs Janzen
@thijsjanzen.bsky.social
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📥 266
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Scientific Programmer @ TRES, University of Groningen, Netherlands
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Thijs Janzen
Shaun Killen
about 1 month ago
🧵1/9 There are 35,000+ fish species, but we have formal social-behaviour classifications for a tiny fraction. Most knowledge lives in the experience of researchers, fishers, divers, aquarists, naturalists, and Indigenous communities, but almost none of it is centralised. So we built
ShoalBase.org
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ShoalBase | Join, Explore, Contribute Now
ShoalBase offers a global database on fish social behaviour, supporting research, conservation, and ecology through community contributions and visual data mapping.
https://ShoalBase.org
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Matthew Asker
16 days ago
Up to 10 doctoral positions at the Max Planck Institute for Evolutionary Biology now open for application! Start date September 2026. More info here:
www.evolbio.mpg.de/imprs
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Woah, that R logo is absolute fire! Immediately set it as my application icon! (and also, the workshop looks really cool as well!)
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15 days ago
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This is wonderful. High-end Technology together with straightforward ecology.
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20 days ago
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Thijs Janzen
bioRxiv Evolutionary Biology
22 days ago
Statistical and structural bias in birth-death models
https://www.biorxiv.org/content/10.64898/2025.12.02.691894v1
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Mike Morrison
about 1 month ago
Play a little game and choose the right icon for each role in science. Play our CRediT Roles icon game/survey, and help make scientific authorship clearer and more accessible!
creditsurvey.sciux.org
#OpenScience
#ScienceUX
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George Turner
30 days ago
Part 1 version 1 of my Malawi cichlid ID guide is out now. 2 more parts for follow, with my intention being to revise, expand and improve each over time. This one is essentially a companion to our whole genome sequence paper in Science (Blumer et al. 2025).
ecoevorxiv.org/repository/v...
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Identification of the Cichlid Fishes of Lake Malawi/Nyasa Part 1: Cyrtocarina (the ‘benthic’ or ‘hap’ sub-radiation).
https://ecoevorxiv.org/repository/view/10901/
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Thijs Janzen
Dugdale Research Group
about 1 month ago
Congratulations to Dr
@euantheyoung.bsky.social
who defended his PhD yesterday on 'Family matters: The role of trade-offs in shaping human life-histories and health'
research.rug.nl/en/publicati...
@rug.nl
supervised with
@erikpostma.bsky.social
@lummaalab.bsky.social
🎉
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Mark A. Hanson
about 2 months ago
We wrote the Strain on scientific publishing to highlight the problems of time & trust. With a fantastic group of co-authors, we present The Drain of Scientific Publishing: a 🧵 1/n Drain:
arxiv.org/abs/2511.04820
Strain:
direct.mit.edu/qss/article/...
Oligopoly:
direct.mit.edu/qss/article/...
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Sebastian Höhna
about 2 months ago
PhD position available in evolutionary genomics/bioinformatics (
hoehnalab.github.io/job_adverts/...
). Topic: analyzing gene expression evolution across several firefly species and linking expression changes to genomic architecture. The position is jointly supervised with
@anaevolcatalan.bsky.social
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https://hoehnalab.github.io/job_adverts/GEvol2_PhD_Position.pdf
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Marianthi Tangili, PhD
about 2 months ago
Extremely proud of my good friend and colleague
@euantheyoung.bsky.social
whose work is featured in
@nrc.nl
. Read bellow for some excellent science and fascinating results. 👪🤰👶🧬
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Euan Angus Young
about 2 months ago
1/13 New paper out!
www.science.org/doi/10.1126/...
Historical records across thousands of women showed that mothers with more children had shorter lifespans during a famine, fitting an evolutionary explanation for why we age
@hannahdugdale.bsky.social
@lummaalab.bsky.social
@erikpostma.bsky.social
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Hadley Wickham
about 2 months ago
Do you teach
#rstats
? Do your students complain about how lame and old-fashioned dplyr is? Don't worry: I have the solution for you:
github.com/hadley/genzp...
. genzplyr is dplyr, but bussin fr fr no cap.
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GitHub - hadley/genzplyr: dplyr but make it bussin fr fr no cap
dplyr but make it bussin fr fr no cap. Contribute to hadley/genzplyr development by creating an account on GitHub.
https://github.com/hadley/genzplyr
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Henrik Bengtsson
about 2 months ago
The detectCores() apocalypse is creeping up on us 👻🐛 As more people are getting access to 128+ CPU cores, code spinning up parallel cluster with detectCores() workers fails - not enough
#RStats
connections available Friends, do *not* default to detectCores(), bc
www.jottr.org/2022/12/05/a...
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Please Avoid detectCores() in your R Packages
The detectCores() function of the parallel package is probably one of the most used functions when it comes to setting the number of parallel workers to use in R. In this blog post, I’ll try to explai...
https://www.jottr.org/2022/12/05/avoid-detectcores/
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Potato-tomato
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about 2 months ago
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Dugdale Research Group
2 months ago
Congratulations to Dr
@friggspeelman.bsky.social
who was awarded a PhD yesterday 🎉
@rug.nl
on 'Socially monogamous partnerships in birds: Causes, consequences, and pair-bond strength'
research.rug.nl/en/publicati...
A fantastic achievement!
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Jamie Winternitz
2 months ago
Join Our Citizen Science Project! We are mapping the house mouse hybrid zone in Schleswig-Holstein, DE, and you can help. Visit our House Mouse Hybrid Zone Project website to learn more
jwinternitz.github.io/mouse-hybrid...
. Funded by
@dfg.de
at
@uni-hamburg.de
#DFG
#musmusculus
#wildmice
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Edward T Eng
3 months ago
Muyuan Chen has turned structural biology into an immersive experience with his new video game Meowtabolism, now available on Steam. Try the demo here:
store.steampowered.com/app/4045010/...
Give Muyuan feedback:
steamcommunity.com/app/4045010
#ScienceGaming
#StructuralBiology
#CryoEM
#STEMOutreach
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Darshak Bhatt
4 months ago
Very glad to share my first last-author paper, now published in iScience! 🎉In this study, we addressed a key challenge in virus-based cancer therapy: macrophage-mediated suppression, which limits viral infection and restricts T cell activation in tumors. Link:
www.sciencedirect.com/science/arti...
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Alphavirus replicons encoding IFN-γ enhance cancer virotherapy by overcoming macrophage-mediated suppression
Interference by tumor-associated macrophages may significantly reduce the efficacy of therapeutic viruses designed to infect cancer cells and activate…
https://www.sciencedirect.com/science/article/pii/S2589004225018061
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Thomas Lin Pedersen
4 months ago
I am beyond excited to announce that ggplot2 4.0.0 has just landed on CRAN. It's not every day we have a new major
#ggplot2
release but it is a fitting 18 year birthday present for the package. Get an overview of the release in this blog post and be on the lookout for more in-depth posts
#rstats
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ggplot2 4.0.0
A new major version of ggplot2 has been released on CRAN. Find out what is new here.
https://www.tidyverse.org/blog/2025/09/ggplot2-4-0-0/
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Charlotte Huyghe
4 months ago
Even the cichlid fish eggs of Lake Tanganyika are highly diverse! Picture by Grégoire Vernaz and Anja Haefeli
www.horizons-mag.ch/2025/09/04/f...
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Fishing for biodiversity
Horizons - In brief
https://www.horizons-mag.ch/2025/09/04/fishing-for-biodiversity/
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Roberto Rozzi
4 months ago
🚨 Our study investigating the relationship between evolutionary age and range size across plants and animals is out in
@natcomms.nature.com
! Delighted to be part of this great project led by
@adrianaalzate.bsky.social
www.nature.com/articles/s41...
🌐📈⏳️🐐🐋🐦🦎🐸🐠🌴🏝
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Joseph Tobias
4 months ago
🚨New paper led by
@adrianaalzate.bsky.social
showing that in most plant and animal groups the age of a species predicts its geographical range size, although the relationship is strongly mediated by dispersal ability and occurrence on islands 🧪🌐🪶
www.nature.com/articles/s41...
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Maxwell Shafer
4 months ago
Now published
@natecoevo.nature.com
with
@annika-nichols.bsky.social
, our latest on the evolution of 𝘴𝘭𝘦𝘦𝘱 across 𝟲𝟬 𝘀𝗽𝗲𝗰𝗶𝗲𝘀 of cichlid fishes!
doi.org/10.1038/s415...
with members of the
@schierlab.bsky.social
and Salzburger labs, as well as the burgeoning Shafer lab
@uoftcellsysbiol.bsky.social
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Annals of Botany
5 months ago
🔥ADVANCE ACCESS🔥: Climatic oscillations, dispersibility and adaptability behind worldwide mountain radiations of the Helichrysum– Anaphalis—Pseudognaphalium (HAP) clade (Compositae)
doi.org/10.1093/aob/...
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Thijs Janzen
iDiv Biodiversity Research
4 months ago
To the paper:
doi.org/10.1038/s414...
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Evolutionary age correlates with range size across plants and animals - Nature Communications
Why are some species widespread while others are found only in small, isolated areas? This study shows that species with narrow ranges, and thus higher extinction risk, are often island-restricted, po...
https://doi.org/10.1038/s41467-025-62124-y
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Thijs Janzen
iDiv Biodiversity Research
4 months ago
A new
@natcomms.nature.com
study led by iDiv alumna
@adrianaalzate.bsky.social
@naturalis.bsky.social
uncovered that across >26,000 species evolutionary age is positively linked to range size, except in marine mammals.
#Biodiversity
#Evolution
#iDivResearch
www.idiv.de/older-specie...
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Older species tend to have large ranges – unless they live on islands
New Nature Communication publications sheds light on how ecological, evolutionary, and geographical processes can simultaneously shape species’ vulnerability to extinction.
https://www.idiv.de/older-species-tend-to-have-large-ranges/
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Thijs Janzen
Eawag Aquatic Research
4 months ago
An international study conducted in Eawag's experimental ponds demonstrates how indirect ecological effects influence the evolution of species. 👉
www.eawag.ch/en/info/port...
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Indirect effects drive evolution
An international study conducted in Eawag's experimental ponds demonstrates how indirect ecological effects influence the evolution of species.
https://www.eawag.ch/en/info/portal/news/news-detail/indirect-effects-drive-evolution/
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This study by
@hoehna.bsky.social
and coauthors seems very reassuring: where we often pick partition specific models rather ad-hoc, it appears these do not influence divergence time estimations. (I would still love to see a densitree plot though!)
www.biorxiv.org/content/10.1...
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Impact of Partition Models on Phylogenetic Inference and Divergence Times of Lampyridae from Mitochondrial Genomes
Mitochondrial genomes are frequently used for phylogenetic inference due to their availability and cost-efficient sequencing. In most mitogenomic phylogenetic analyses, only the two ribosomal RNA and ...
https://www.biorxiv.org/content/10.1101/2025.08.19.671050v1
4 months ago
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Prof Sam Illingworth
4 months ago
🌍 Age and extinction risk Analysing 26,000 species, researchers found older plants and animals usually have larger ranges, while younger species, island dwellers, and poor dispersers face greater extinction risk. 🔗
www.nature.com/articles/s41...
#SciComm
🧪
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Evolutionary age correlates with range size across plants and animals - Nature Communications
Why are some species widespread while others are found only in small, isolated areas? This study shows that species with narrow ranges, and thus higher extinction risk, are often island-restricted, po...
https://www.nature.com/articles/s41467-025-62124-y
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Alessio Capobianco
6 months ago
We now have protein sequences from rhino enamel that are >20 million years old! I am extremely excited and grateful to have been part of this project. The incredible thing: these sequences are informative enough to place this ancient species in the rhino tree!
www.nature.com/articles/s41...
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Phylogenetically informative proteins from an Early Miocene rhinocerotid - Nature
Protein sequences from fossil tooth enamel of a rhinocerotid from Canada’s High Arctic are used to develop phylogenetic frameworks from a specimen too old to preserve ancient DNA.
https://www.nature.com/articles/s41586-025-09231-4
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This is an amazing visualization of genome equivalence! (I do wonder to what extent such reshuffling of the genome impacts the phylogeny? Is this phylogeny really valid given so much reshuffling?)
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6 months ago
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Dariia Mykhailyshyna
7 months ago
❗️Our next workshop will be on June 13th, 6 pm CEST, on Using LLMs with ellmer by
@hadley.nz
! Register or sponsor a student by donating to support Ukraine! Details:
bit.ly/3wBeY4S
Please share!
#AcademicSky
#EconSky
#RStats
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Rafeeque Mavoor
8 months ago
🧵5 Top Free Alternatives to BioRender for Scientific Illustrations! These five websites offer free scientific illustrations for biologists. Great for presentations, research papers and other research communication needs. Save and share the post!
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We Are R-Ladies
8 months ago
Exploring themes in {ggplot2}? 🎨 Check out:
bit.ly/4d9jtbH
It lets you preview different themes before adding them to your code - so handy for picking the perfect vibe! ✨ It features packages like: 🖌️ {ggthemr} 🌙 {ggdark} 👩🏽🔬 {ggtech} ⚙️ Setting an active theme globally
#RStats
#ggplot2
#DataViz
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Peter Beerli
8 months ago
Some of you may be interested in this:
academic.oup.com/sysbio/advan...
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Estimating Genome-wide Phylogenies Using Probabilistic Topic Modeling
Abstract. Methods for rapidly inferring the evolutionary history of species or populations with, genome-wide data are progressing, but computational constr
https://academic.oup.com/sysbio/advance-article/doi/10.1093/sysbio/syaf015/8125206?searchresult=1
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Richard Merrill
8 months ago
Really excited that our DFG grant on the Speciation Genomics of Eye Size variation in *Heliconius* has been funded :) In the next weeks, I will post an advert for a PhD, but if you know of good students, please suggest they get in touch. Please repost.
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Marianthi Tangili, PhD
8 months ago
New paper alert🚨 We used calibrated Sentinel-1 backscatter coefficients to estimate grass biomass, woody canopy volume and tree basal area in the Greater Serengeti-Mara Ecosystem.
zslpublications.onlinelibrary.wiley.com/doi/10.1002/...
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Advancing the mapping of vegetation structure in savannas using Sentinel‐1 imagery
As vegetation structure monitoring is important for the understanding and conservation of savanna ecosystems, we explored the utility of C-band synthetic aperture radar imagery for mapping both grass...
https://zslpublications.onlinelibrary.wiley.com/doi/10.1002/rse2.70006
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Susanne Bähr
8 months ago
What would a PhD be without a side quest? 🦀🪸 Super excited our study is out in Frontiers in Marine Science! We tested if gall crabs affect coral algal symbionts using Imaging PAM fluorometry. Turns out—these tiny tenants don’t stress out the algae. 🔗
doi.org/10.3389/fmar...
(1)
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And no ORCID...
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9 months ago
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Dirk Eddelbuettel
9 months ago
#Rstats
is being rewritten in Rust, and the R Core already has a book coming out!
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Darshak Bhatt
9 months ago
Presenting our poster on programming oncolytic alphavirus replicons with immunogenic signals at the Dutch Annual Virology symposium
#DAVS2025
in
#sunny
Utrecht 🌞
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Thijs Janzen
9 months ago
When a cell divides, which one is the mother and which one is the daughter? Models of network structured populations usually assume that the potentially mutated daughter cell is moving to an adjacent site, but what happens if we change that assumption? 1/2
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Pete Manning
10 months ago
Survey: What makes a plant beautiful? Nice way to spend 5 minutes.
www.biodiful.org#/plantiful_en
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Biodiful
Etude de la perception humaine de la biodiversité. Studying human perception of biodiversity.
https://www.biodiful.org/#/plantiful_en
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Rike Stelkens
10 months ago
We have a 4-year fully funded PhD position available! Research topics include but are not limited to 1) Parallel evolution of climate adaptation in Europe and South America 2) The genetic architecture of temperature adaptation 3) The evolution of pathogenicity
su.varbi.com/en/what:job/...
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PhD student in Evolutionary Genomics with Yeast
The Department of Zoology of Stockholm University includes ca. 80 employees, including researchers, PhD students, and administrative staff. Research and education at the department occurs in an intern
https://su.varbi.com/en/what:job/jobID:798314/
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nloptr is awesome, having examples to get started with integrating this in your Rcpp package is great!
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10 months ago
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Thijs Janzen
Mya A. Darsan
12 months ago
anyone have pictures of their recent poster using the
#betterposter
design? specifically related to eco evo or env sci? (looking for some examples to show future students!)
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This would really open up publishing and the peer review process.
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10 months ago
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Davis Vaughan
10 months ago
@lionelhenry.bsky.social
and I are so excited to finally announce Air - an extremely fast R code formatter! 🎉 With Air, you'll never need to worry about styling your
#rstats
code ever again. All you need to do is save, and Air takes care of the rest.
www.tidyverse.org/blog/2025/02...
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Air, an extremely fast R formatter
We are thrilled to announce Air, a new R formatter.
https://www.tidyverse.org/blog/2025/02/air/
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