Category: Methods papers

Methods papers, Statistical methods

DImodelsMulti: Making Advanced DI Modelling Accessible.

Post provided by Laura Byrne. I am a researcher at University College Cork, Ireland, working with statistical models for use with biodiversity data. My research is driven by my interests in sustainability, the facilitation of natural ecosystems alongside necessary urbanisation, statistical modelling, and coding. You can find out more about our work on Diversity-Interactions models (including video introductions, maths and coding tutorials, and an archive … Continue reading DImodelsMulti: Making Advanced DI Modelling Accessible.

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Methods papers

Managing plant viral epidemics – linking insect transmission and epidemic risk

Post provided by Ruairí Donnelly, Israël Tankam, and Alison Scott-Brown Here in the Epidemiology and Modelling Group at the University of Cambridge, our work is driven by the need to secure food supplies for future generations, particularly for those living in areas of the world already under increasing pressure from climate change and extreme weather conditions, making it harder for small-holders to produce and trade … Continue reading Managing plant viral epidemics – linking insect transmission and epidemic risk

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Methods papers

Integrating multi-gene barcodes with deep learning to classify snails

Post provided by Bin Ye Gastropoda animals, such as land, freshwater, and sea snails, have diverse forms and unique life histories, making them an excellent window for exploring biodiversity. In the era of accelerated integration of artificial intelligence and ecology, we have developed the SnailBaLLsp intelligent classification model, aiming to use innovative algorithms to solve traditional classification problems and better serve species identification and evolutionary … Continue reading Integrating multi-gene barcodes with deep learning to classify snails

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Methods papers

Reading the patterns: vegetation patterns reveal the fragility of dryland sites

Post provided by Benoît Pichon When I first started working on dryland ecosystems in my PhD, I didn’t expect to spend quite so much time staring at black-and-white aerial photographs. Yet these simple images—pixels of vegetation scattered across a matrix of white bare soil pixels—hold fingerprints of the resilience of drylands. In this work, we developed an approach to learn about dryland resilience from vegetation … Continue reading Reading the patterns: vegetation patterns reveal the fragility of dryland sites

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Methods papers

From Trowels to TensorFlow: Bridging the Gap Between Ancient Past and Digital Future

Post provided by Margot Belot If you had asked me a few years ago what I would be doing today, I probably would have told you I’d be digging up ancient artefacts somewhere or cataloguing them in a museum. My background is in Archaeology and Art History; for a long time, my world revolved around the tactile nature of physical objects, carefully handling, describing, and … Continue reading From Trowels to TensorFlow: Bridging the Gap Between Ancient Past and Digital Future

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Code and Applications, Methods papers

Students, software, and soil flux: lessons learned from development of a package to estimate soil carbon flux at National Ecological Observatory Sites across the United States

By Naupaka Zimmerman and John Zobitz We (Naupaka and John) are faculty at primarily undergraduate institutions (PUIs) where our lives are a blend of teaching and scholarship. We’re always looking for projects that impact our teaching, mentoring, and scholarship duties simultaneously—those sweet spots where one effort advances multiple aims. Due to higher teaching loads and institutional missions that focus on undergraduate research, it can be … Continue reading Students, software, and soil flux: lessons learned from development of a package to estimate soil carbon flux at National Ecological Observatory Sites across the United States

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Ecology, Methods papers

Citizen scientist coders for wildlife conservation – a MoveApps story

Post provided by Andrea Kölzsch. I am a movement ecologist and have until recently worked as a PostDoc at the Max Planck Institute of Animal Behavior in Radolfzell, Germany. My research focusses, on the one hand, on the tracking of waterbird movement, but in a more general capacity on the empowering of ecologists to gain knowledge from complex data. The background story of our presently … Continue reading Citizen scientist coders for wildlife conservation – a MoveApps story

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Ecology, Methods papers

No training necessary: Shark tracking simplified

Post provide Chinmay Keshava Lalgudi. Drone imagery offers an efficient way to gather data on mobile animals. Drones are used for population surveys, creating 3D models of habitat, and even studying how animals move and behave in their environment. While collecting this data is relatively easy, manually annotating it is painstaking and slow. Analysing drone imagery can often mean spending hours in front of a … Continue reading No training necessary: Shark tracking simplified

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Ecology, Methods papers, Practical Tools

Capturing diversity below the species level using HyRAD : a nuclear-DNA enrichment-based capture method (HyRAD) applied to environmental DNA.

Post provided by Stéphanie Manel. Why use HyRAD for eDNA capture? Traditional population genetics approaches require sampling tissue from individuals, which is problematic in aquatic environments where specimen collection is often challenging. Filtering water allows researchers to collect environmental DNA (eDNA), genetic material shed by organisms into their surroundings. Unlike approaches targeting a single DNA barcode, HyRAD allows for the capture of multiple nuclear DNA … Continue reading Capturing diversity below the species level using HyRAD : a nuclear-DNA enrichment-based capture method (HyRAD) applied to environmental DNA.

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Methods papers

The best of both worlds: a predictive home range model for colonial animals combining biological realism with minimal data requirements.

Post provided by Holly Niven. I’m Holly, an ecology PhD student at the University of Glasgow, with a background in mathematics and physics. My research is in quantitative ecology, with a current focus on investigating the exposure of animals to disturbances in their environment and understanding the drivers of their population dynamics.  What are home ranges and why are they useful? Home ranges (HRs) describe … Continue reading The best of both worlds: a predictive home range model for colonial animals combining biological realism with minimal data requirements.

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