@Rebeccasaurus_

Postdoctoral researcher at Natural History Museum & Centre for Planetary Habitability Oslo 🦖 Computational palaeobiology, deep learning and macroevolution 🦣

Joined November 2019
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Really happy to see paper one of my PhD out today in @NatureComms. We develop a deep learning framework for estimating diversity from fossil data 🤿 🦣🐚 Many thanks to @JoeFlanSan and Daniele Silvestro for the collaboration nature.com/articles/s41467-0…
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Rebecca Cooper retweeted
Catalina Pimiento@pimientocJan 22
Our new paper is online in @CurrentBiology! We found that; 1) today's sharks & ray diversity was already reached ~100Ma; 2) that the K/Pg extinction was not catastrophic; 3) that the max diversity was reached ~50Ma; and 4) that today's diversity is depleted compared to the past.
Pimiento Research Group@PimientoGroupJan 22
Our new paper is out🔓! We reconstructed the 145-myr diversity of sharks using deep learning, unveiling hidden patterns: -modern diversity by the Cretaceous📈 -small decline in the K/Pg🤏 -peak in the Eocene🌄 -long-term decline towards the present📉 cell.com/current-biology/ful…
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🚨 Registration & abstract submission are NOW OPEN for the CPEG Meeting & Conservation Paleobiology Symposium! 🚨 📅 Summer 2025 📍 University of Zurich, Switzerland Visit our website for keynote speakers, deadlines, fees, workshops & more cpeg-cpb25.uzh.ch/en.html #CPEGCPB25
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Trying to find people over on the other place 🔎🦋 seems a good bit calmer so far
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Please share if you can! I will give a second, revamped workshop on Probabilistic inference of Phylogenetic Comparative Methods (PCM) using Julia: transmittingscience.com/cour…

Dive Deep into Probabilistic Phylogenetic Comparative Methods

Transmitting Science ONLINE course Dive Deep into Probabilistic Phylogenetic Comparative Methods, by Dr. Ignacio Quintero.

transmittingscience.com
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🚨 Exciting news! The second circular for the upcoming CPEG meeting & Conservation Paleobiology Symposium in summer 2025 is out! Details on keynote speakers, abstract submissions, registrations, fees, workshops, and more: cpeg-cpb25.uzh.ch/en.html See you in Zurich!🇨🇭 #CPEGCPB25
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Rebecca Cooper retweeted
Will Gearty@willgearty17 Oct 2024
📢📢 New preprint out now on @EarthArXiv! "deeptime: an R package that facilitates highly customizable visualizations of data over geological time intervals" That's right, there is now a proper citable paper for my deeptime R package! doi.org/10.31223/X5841N #rstats #geology
Figure 1: Plot of global benthic δ18O data for 0 – 5.3 Ma (Lisiecki and Raymo, 2005) with geomagnetic polarity subchrons displayed on the left y-axis and planktic foraminiferal primary biozones plotted on the right y-axis.

ALT Figure 1: Plot of global benthic δ18O data for 0 – 5.3 Ma (Lisiecki and Raymo, 2005) with geomagnetic polarity subchrons displayed on the left y-axis and planktic foraminiferal primary biozones plotted on the right y-axis.

Figure 2: A mammal phylogeny (Garland et al., 1992) plotted using the ggtree and deeptime packages. The greyscale background indicates geological stages, whereas the colored timescale indicates geological epochs.

ALT Figure 2: A mammal phylogeny (Garland et al., 1992) plotted using the ggtree and deeptime packages. The greyscale background indicates geological stages, whereas the colored timescale indicates geological epochs.

Figure 3: Crinoid morphological disparity data (Wright, 2017; Guillerme et al., 2020) plotted using the coord_trans_xy() and facet_wrap_color() functions to show the change in distribution across the end-Ordovician extinction.

ALT Figure 3: Crinoid morphological disparity data (Wright, 2017; Guillerme et al., 2020) plotted using the coord_trans_xy() and facet_wrap_color() functions to show the change in distribution across the end-Ordovician extinction.

Figure 4: A stratigraphic column of Cretaceous lithostratigraphic units from the San Juan Basin, USA. The pattern fills indicate the primary lithologies of the units as reported by the Macrostrat API (Peters et al., 2018) via the rmacrostrat R package (Jones et al., 2024).

ALT Figure 4: A stratigraphic column of Cretaceous lithostratigraphic units from the San Juan Basin, USA. The pattern fills indicate the primary lithologies of the units as reported by the Macrostrat API (Peters et al., 2018) via the rmacrostrat R package (Jones et al., 2024).

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Our application note is now in preprint at @biorxivpreprint DeepDiveR is a package for deep learning estimation of diversity from fossil occurrences in R and Python 🤿🐅 Thanks to @bethany_j_allen and Daniele Silvestro for the collaboration so far! biorxiv.org/content/10.1101/…

DeepDiveR – A software for deep learning estimation of palaeodiversity from fossil occurrences

1. The incompleteness of the fossil record, in particular variation in preservation and sampling through space and time, presents a barrier to estimating changes in biodiversity which standard...

biorxiv.org
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Rebecca Cooper retweeted
Kateryn Pino@KaterynPino10 Sep 2024
If you’re to attend #GSA2024 & are interested in paleo, #macroevolution & quantitive methods to estimate diversity dynamics in time & space, consider joining our course on Sat 21st Sep: “Decoding the past: Deep Learning for Macroevolutionary Analysis” 💻🦖⚒️
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Interested in doing a PhD on reconstructing Phanerozoic marine biodiversity and testing its drivers? We are advertising a fully-funded position at the Institut de Ciències del Mar (ICM) in sunny Barcelona! ☀️ Details here: icm.csic.es/en/calls/fully-f… #palaeontology #palaeobiology
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We are very excited to invite you all to the next edition the Crossing the Palaeontological-Ecological Gap (CPEG) meeting AND the Conservation Paleobiology Symposium, which will be held together, at the University of Zurich (Switzerland) in the summer of 2025
CPEG & CPB Symposium 2025@CPEG_CPB256 Aug 2024
We're thrilled to announce the upcoming CPEG & Conservation Paleobiology Symposium! Join us in person or virtually at the University of Zurich🇨🇭 in the summer of 2025. First circular here: cpeg-cpb25.uzh.ch/
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Benchmarking imputation methods for categorical biological data - Gendre - Methods in Ecology and Evolution - We compare different methods to impute missing trait data, use sharks as a test, and introduce an R package besjournals.onlinelibrary.wi…

Benchmarking imputation methods for categorical biological data

Trait datasets are at the basis of a large share of ecology and evolutionary research, being used to infer ancestral morphologies, quantify species extinction risks, or evaluate the functional div...

besjournals.onlinelibrary.wiley.com
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1/ Glad to see our new study published! We present a new analytical tool to untangle the complexity of factors driving speciation and extinction patterns over deep-time. Our method uses paleontological occurrences and is based on neural networks. science.org/doi/10.1126/scia…
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New paper alert!🚨 A Phanerozoic gridded dataset for palaeogeographic reconstructions 🌐 Global Plate Models are widely used in the Earth Sciences to reconstruct the past geographic position of geological samples, but their application is not trivial... nature.com/articles/s41597-0…

A Phanerozoic gridded dataset for palaeogeographic reconstructions

Scientific Data - A Phanerozoic gridded dataset for palaeogeographic reconstructions

nature.com
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Thrilled that our research, "Challenges in estimating species' age from phylogenetic trees," was published in @GEB_macro . Estimating species age is not trivial, but now it is more accurate thanks to our proposed method. doi.org/10.1111/geb.13890
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Pleased to share my latest PhD chapter; where me & @pimientoc investigate the rise & fall of shark functional diversity during the Cenozoic era. Now published OA in @GEB_macro! 🦈
Pimiento Research Group@PimientoGroup12 Jun 2024
Our new paper is published OA in @GEB_macro: onlinelibrary.wiley.com/doi/… Analysing >9000 teeth, we find that shark functional diversity was high for most of the last 66 million years, but has steadily declined over the last 10 million years to its lowest value today (1/2)
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Rebecca Cooper retweeted
NatureEcoEvo@NatureEcoEvo11 Jun 2024
Heterogeneous selectivity and morphological evolution of marine clades during the Permian–Triassic mass extinction rdcu.be/dKu4F
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In case you missed Daniele's lecture on "Neural network models to infer diversity trajectories and the drivers of speciation and extinction", you can catch up over on our YouTube channel! youtube.com/watch?v=hGJ7OMiW… #FossilFriday #palaeobiology #paleontology
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Our review "The extinct marine megafauna of the Phanerozoic" is out! This is a product of the block-course we teach each Autumn at @UZH_Science & includes the students of 2 cohorts, as well as our guest speakers & most of our research team. bit.ly/3VaBPAp
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Rebecca Cooper retweeted
Saupe Lab Oxford@ErinSaupe21 Mar 2024
A great first day of our NERC-funded spatial methods workshop with ⁦@PalaeoTom⁩ and ⁦@RussellGarwood⁩ in the beautiful, restored Westwood Room ⁦@morethanadodo⁩!
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