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willgearty.bsky.social
Will Gearty
@willgearty.bsky.social
1.1K followers 620 following 59 posts
Paleobiologist 🦴, Software Engineer 💻, and Open Scientist 🔍
Postdoctoral Researcher at Syracuse University (He/Him)
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willgearty.bsky.social
Will Gearty @willgearty.bsky.social · Jun 23
📢 deeptime 📦 v. 2.2.0 is now on #CRAN:

- geom_text_phylo() for adding labels to radial phylogenies 🏷️
- timescales updated to ICS 2024/12 🗓️
- compatibility with ggplot2 4.0.0 📈

Patch notes 👉 williamgearty.com/deeptime/news/

Docs 👉 williamgearty.com/deeptime/

#rstats #dataviz #geology #deeptime
Reposted by Will Gearty
palaeoverse.bsky.social
Come and join us in 40 mins to hear from Dr Tyler! 🤩
palaeoverse.bsky.social The Palaeoverse Community @palaeoverse.bsky.social · 9d
🚨Palaeoverse Lecture Series🚨
🗓️20th November 2025, 15:00 UTC🗓️

Join us next week to hear from Dr Carrie Tyler from University of Nevada, Las Vegas, on “The high fidelity of trophic structure in ancient marine ecosystems: from functional diversity to food webs” 🎣

Register here: bit.ly/palaeoverse-...
A flyer for the next instalment of the Palaeoverse Lecture Series, featuring a yellow cartoon trilobite following a trail of small cubes. There is also a picture of Dr Tyler, wearing a teal and black scarf and smiling into the camera.
November 20, 2025 at 2:20 PM
Reposted by Will Gearty
harriedrage.bsky.social
*Gain skills and training in journal publishing!* Open Palaeontology is looking for Managing Editors and Steering Committee members! Please consider helping to shape community open-access publishing in palaeontology, and spread the word!
openpalaeo.org
@openpalaeo.bsky.social
Open Palaeontology (open access journal) Managing Editor job advert Open Palaeontology (open access journal) Steering Committee job advert
November 19, 2025 at 10:49 AM
willgearty.bsky.social
📢 rphylopic 📦 1.6.0 is now on #CRAN!

- resolve_phylopic() retries failing API calls 🔄
- geom_phylopic()/add_phylopic() work with ggplot2 4.0.0 🪛
- add_phylopic_tree() wraps add_phylopic() for base R trees 🪾
- get_phylopic() can get og source files from #PhyloPic 👤

rphylopic.palaeoverse.org
#Rstats
November 18, 2025 at 3:30 PM
Reposted by Will Gearty
palaeoverse.bsky.social
🚨Palaeoverse Lecture Series🚨
🗓️20th November 2025, 15:00 UTC🗓️

Join us next week to hear from Dr Carrie Tyler from University of Nevada, Las Vegas, on “The high fidelity of trophic structure in ancient marine ecosystems: from functional diversity to food webs” 🎣

Register here: bit.ly/palaeoverse-...
A flyer for the next instalment of the Palaeoverse Lecture Series, featuring a yellow cartoon trilobite following a trail of small cubes. There is also a picture of Dr Tyler, wearing a teal and black scarf and smiling into the camera.
November 13, 2025 at 12:17 PM
Reposted by Will Gearty
paleosynth.bsky.social
On Saturday November 15, 2025 we will open the call to submit proposals for the Analytical Paleobiology School 2026 for grad students in Erlangen for a training in analytical methods. Do you want to join or send someone? More info and details: www.paleosynthesis.nat.fau.de/science-scho...
November 11, 2025 at 7:03 AM
willgearty.bsky.social
Sounds like a pretty cool project* studying the coevolution of the geosphere 🌍 and biosphere 🐚! I've already got a PhD, but if you're looking for a funded opportunity to get one for yourself, think about applying!

*@lewisajones.bsky.social is pretty cool, too.

#paleontology #academia #phdchat
lewisajones.bsky.social Lewis A. Jones (he/him) @lewisajones.bsky.social · 19d
Interested in corals, dispersal, and diversification dynamics? 🪸

We're offering a PhD project on how the Tethys closure shaped global marine biodiversity — supervised by me, Bridget Wade, Nadia Santodomingo, & Francesca Bosellini.

🗓️ Apply by 17th December 2025

www.trees-dla.ac.uk/projects/how...
How did the closure of the Tethys Ocean impact global marine biodiversity? | TREES DLA
The closure of the Tethys Ocean during the Miocene represents one of the most profound reorganisations of Earth’s surface systems in the Cenozoic. Once a vast marine corridor linking the Indo-Pacific ...
www.trees-dla.ac.uk
November 3, 2025 at 3:04 PM
Reposted by Will Gearty
palaeoverse.bsky.social
Join us later today for Dr Hagen’s talk! An additional reminder, double-check the time if your clocks have recently changed (this will be at 4pm CET) 🕰️
palaeoverse.bsky.social The Palaeoverse Community @palaeoverse.bsky.social · 29d
🚨Palaeoverse Lecture Series🚨
🗓️30th October 2025, 15:00 UTC🗓️

Join us next week to hear from Dr Oskar Hagen, on “Mechanistic biodiversity modelling with gen3sis: population-based simulations across regional and global domains to deep and shallow time” 🌐

Register here: bit.ly/palaeoverse-...
A flyer for the next instalment of the Palaeoverse Lecture Series. The flyer features a cartoon landscape with a river and trees, overlying a grid showing how the system might be simulated across space. There is also a picture of Dr Oskar Hagen, wearing a white shirt and navy suit jacket, smiling into the camera.
October 30, 2025 at 11:56 AM
Reposted by Will Gearty
paleowin.bsky.social
Loosing the PRI would devastate US science. Any level donation, spreading the word helps. #FossilFriday #SaveScience

priweb.donorsupport.co/page/FUNWALK...
Save the Museum of the Earth – Secure Its Future!
In these challenging times, places like the Paleontological Research Institution (PRI) stand as beacons of hope, fostering understanding of the natural world and inspiring action for a sustainable fut...
priweb.donorsupport.co
October 29, 2025 at 6:05 PM
Reposted by Will Gearty
harriedrage.bsky.social
Last week the @palaeoverse.bsky.social team published our new paper outlining steps for cleaning palaeobiological occurrence data. I'm really proud of this one; we even have a step-by-step run-through of data cleaning and an accompanying vignette. Thanks to the fantastic team! ⭐
October 29, 2025 at 10:23 AM
Reposted by Will Gearty
python.org
TLDR; The PSF has made the decision to put our community and our shared diversity, equity, and inclusion values ahead of seeking $1.5M in new revenue. Please read and share. pyfound.blogspot.com/2025/10/NSF-...
🧵
The official home of the Python Programming Language
www.python.org
October 27, 2025 at 2:47 PM
Reposted by Will Gearty
thepalass.bsky.social
Assessing the impact of character evolution models on phylogenetic and macroevolutionary inferences from fossil data onlinelibrary.wiley.com/doi/10.1111/... @daveyfwright.bsky.social @datadryad.bsky.social
Series of plots and graphs illustrating the five different evolution model configurations studied. They correspond to a range of simple to (moving down the page) increasingly complex and parameter-rich models of morphological evolution.
October 27, 2025 at 8:45 PM
willgearty.bsky.social
Reposting this today to give it some more attention. Working on this paper with other @palaeoverse.bsky.social folks was a great experience 😄. Hopefully this will serve as a great resource for paleontologists in the future!

It even comes with R code that you can copy/paste: tenrules.palaeoverse.org
October 27, 2025 at 8:40 PM
willgearty.bsky.social
I've had such a great time talking about some of my recent #opensource and #openscience work at #useR2025, #USRSE25, and #GSAConnects2025 over the last few months!

If you missed it, you can watch the recording of my #useR2025 talk on YouTube.

#reproducibility #paleontology #datascience #Rstats
paleopal: A Shiny app for building data science workflows in paleontology - William Gearty
YouTube video by useR! Conference
www.youtube.com
October 27, 2025 at 7:33 PM
Reposted by Will Gearty
palaeoverse.bsky.social
Currently looking for a postdoctoral position and interested in this kind of research? 👀
Dr Hagen currently has an open position in his new Computational Integrative Biodiversity group at Goethe University Frankfurt, for more details see: www.uni-frankfurt.de/48794987/Zen...
October 24, 2025 at 12:16 PM
Reposted by Will Gearty
palaeoverse.bsky.social
🚨Palaeoverse Lecture Series🚨
🗓️30th October 2025, 15:00 UTC🗓️

Join us next week to hear from Dr Oskar Hagen, on “Mechanistic biodiversity modelling with gen3sis: population-based simulations across regional and global domains to deep and shallow time” 🌐

Register here: bit.ly/palaeoverse-...
A flyer for the next instalment of the Palaeoverse Lecture Series. The flyer features a cartoon landscape with a river and trees, overlying a grid showing how the system might be simulated across space. There is also a picture of Dr Oskar Hagen, wearing a white shirt and navy suit jacket, smiling into the camera.
October 24, 2025 at 12:10 PM
Reposted by Will Gearty
thepalass.bsky.social
Ten simple rules to follow when cleaning occurrence data in palaeobiology onlinelibrary.wiley.com/doi/10.1111/... @lewisajones.bsky.social @es-ucl.bsky.social @paleodb.bsky.social #FossilFriday
Graphic summary of the proposed ten rules and steps to follow when cleaning occurrence data for palaeobiological analysis. The rules are grouped within their respective theme: project setup (Rules 1–3; blue); data exploration and cleaning (Rules 4–8; red); and reporting and archiving (Rules 9 and 10; green).
October 24, 2025 at 2:31 PM
Reposted by Will Gearty
lewisajones.bsky.social
Just in time for #FossilFriday! Our paper is out today in Palaeontology @thepalass.bsky.social

Ten simple rules to follow when cleaning occurrence data in palaeobiology 🧹🦕

onlinelibrary.wiley.com/doi/10.1111/...

Another great @palaeoverse.bsky.social team effort to offer a community resource!
Ten simple rules to follow when cleaning occurrence data in palaeobiology
Large datasets of fossil occurrences, often downloaded from online community-maintained databases, are a vital resource for understanding broad-scale evolutionary patterns, such as how biodiversity h...
onlinelibrary.wiley.com
October 24, 2025 at 11:15 AM
Reposted by Will Gearty
palaeoverse.bsky.social
🎉 This #FossilFriday we’re happy to share our new paper! 🎉

We take readers through 10 key steps for cleaning palaeontological data ready for computational analyses 🦕🧽

There’s also an R vignette showing you how to put these steps into practice! 💻

Check it out: doi.org/10.1111/pala...
A schematic showing “Ten simple rules to follow when cleaning occurrence data im palaeobiology”, each illustrated with a cartoon and arranged around three key processes, in circles. The first stage is Project setup. Here we have: 1. Choose the right data for your question, with a cartoon of an arrow in a bullseye 2. Keep raw data raw, with a cartoon of a hand next to a small ‘no entry’ sign 3. Document your workflow, next to a cartoon of two stacked papers with writing on The second stage is Data exploration & cleaning, which can be performed iteratively: 4. Explore your data, with a cartoon of a magnifying glass over a normal distribution 5. Identify and handle incomplete data records, with a cartoon showing four squares in a larger square, all filled except the one in the bottom right, which is outlined 6. Identify and handle outliers, with a cartoon showing four squares in a larger square, where the one in the bottom right is larger and extends beyond the others 7. Identify and handle inconsistencies, with a cartoon showing three squares in a larger square, with the bottom right quadrant instead featuring a triangle 8. Identify and handle duplicates, with a cartoon showing an opaque square stacked over a transparent (edge only) square The final stage is Reporting and archiving: 9. Report your data and cleaning efforts, with a cartoon of a loudspeaker 10. Deposit your data and workflow, with a cartoon of a safe
October 24, 2025 at 12:44 PM
Reposted by Will Gearty
sortee.bsky.social
#SORTEE2025 Conference is over but you can (re)watch @ www.youtube.com/@SORTEcoEvo/...
- Introductory & closing remarks by @eivimeycook.bsky.social
- Plenary 1 by Dr. Israel Borokini
- Plenary 2 by Prof. Simine Vazire
SORTEE
The Society for Open, Reliable, and Transparent Ecology and Evolutionary Biology (SORTEE) is a service organization which brings together researchers working to improve reliability and transparency…
www.youtube.com
October 17, 2025 at 10:02 AM
Reposted by Will Gearty
daxkellie.bsky.social
Still want to make cleaning biodiversity data shrimp-ler? 🦐

Good news: We just updated our Cleaning Biodiversity Data in R book, so you still can! We've updated data for 2025, added new content & fixed lots of silly typos 😀

Live the shrimp-le life:
cleaning-data-r.ala.org.au

#rstats #ecology 🧪🌏
The cover of the Cleaning Biodiversity Data in R book. It has an illustration of an Pacific Cleaner Shrimp in the middle of a navy background. The shrimp has a bright red-orange shell, pale-yellow body and white whiskers.
October 15, 2025 at 4:12 AM
Reposted by Will Gearty
palaeoverse.bsky.social
We are honoured and excited to be running the 2025 @paleosoc.bsky.social Short Course at #GSAConnects2025 this Saturday! Come and join us (it’s 100% free) if you will be around! 😎
paleosoc.bsky.social Paleontological Society @paleosoc.bsky.social · Jul 10
Mark your calendars for the FREE 2025 PS Short Course, Open Science, Collaboration, and Reproducibility in Paleontology! It will be held from 8:00am - 5:30pm on Saturday, October 18 in San Antonio, TX.

www.paleosoc.org/2025-paleo-s...

#gsaconnects2025 #paleontology #paleo #gsa #shortcourse
October 16, 2025 at 2:41 PM
willgearty.bsky.social
Super excited for GSA this week!

I am especially hyped to teach members of @paleosoc.bsky.social some open science best practices 🔓, help folks with the data at the GSA Data Help Desk 📓, and see lots of great talks about comp paleo 🦴 and geoinformatics 🌐!

#GSAConnects
paleosoc.bsky.social Paleontological Society @paleosoc.bsky.social · Oct 16
Remember to mark your calendar for PS events at GSA in San Antonio, there will be 6 fantastic events across 5 days. Find more information at paleosoc.org and from our Priscum newsletter!
We hope to see you there, & safe travels!
#PSEvents #GSAConnects #GSA #GSASanAntonio #Paleontology
October 16, 2025 at 11:32 AM
willgearty.bsky.social
Happy Indigenous Peoples' Day!
October 14, 2025 at 2:36 AM
Reposted by Will Gearty
paleosynth.bsky.social
We are opening the last call for workshop proposals in 2025! Deadline is December 15, 2025. Visit the website with the necessary information before preparing a proposal. Questions? Contact Danijela Dimitrijevic (science) or Barbara Seuß (logistics) Info: www.paleosynthesis.nat.fau.de/index.php/sc...
October 8, 2025 at 6:31 AM
willgearty.bsky.social
@syracuseu.bsky.social News just published a short piece about a new Shiny-based open-source webapp that I'm working on that is called paleopal!

It's still very much a work-in-progress, but you can check out a working prototype here: williamgearty.com/paleopal/.

news.syr.edu/2025/10/02/o...
Open Source, Open Science: New App Leads Data Reproducibility
Open-source app "Paleopal" facilitates replication and sharing of information among researchers using data science tools to create workflows.
news.syr.edu
October 3, 2025 at 2:38 PM