Software and methods
FLightR
Solar geolocation path reconstruction
An R package for reconstructing animal movement paths from light-level geolocation data. Listed here as group software connected to earlier methodological work.
Resources, software and tools
Public tools, methods and infrastructure connected to movement ecology, demography and animal-borne monitoring.
This page collects selected resources that are useful for students, collaborators and applied partners. It distinguishes group software and infrastructure from external tools that are widely used in movement ecology and ecological modelling.
Software and methods
Software and methods
Behaviour annotation and discovery from animal-borne accelerometer data
Methods for accelerometer and sensor data
A developing methodological direction for identifying behavioural structure from animal-borne motion data. Listed as a method rather than public software until a maintained public repository is available.
Code and reproducible workflows
Code and reproducible workflows
Godwits_worms_and_climate_change
Bar-tailed godwit climate and fuelling-conditions paper
Code, data and results connected to the Nature Communications paper on how fuelling conditions at staging sites can mitigate Arctic warming effects in bar-tailed godwits.
Code and reproducible workflows
RDM-capture-reencounter-with-misidentification
Misidentification-aware robust-design capture-resight paper
Code connected to the Methods in Ecology and Evolution paper on misidentification-aware robust-design capture-resight modelling.
Infrastructure and dashboards
Infrastructure and dashboards
UvA-BiTS
Tracking-data infrastructure
University of Amsterdam infrastructure for collecting, storing and working with high-resolution animal tracking and sensor data.
Infrastructure and dashboards
Waakvogels dashboard
Animal-borne monitoring outputs
Dashboard infrastructure connected to the Waakvogels programme, supporting exploration of animal-borne data and sentinel-indicator outputs for ecological monitoring.
External tools and platforms
External tools and platforms
Movebank
Animal tracking data platform
An international platform for animal tracking data. Included as an external tool and data infrastructure used widely in movement ecology.
External tools and platforms
WATLAS
High-throughput regional tracking
A regional tracking system for high-throughput movement ecology. Included as an external platform relevant to fine-scale movement studies.
External tools and platforms
momentuHMM
Hidden Markov models for animal movement
An R package for fitting hidden Markov models to animal movement data. Included as an external method package, not a group product.
External tools and platforms
crawl
Continuous-time movement modelling
An R package for continuous-time correlated random walk models and movement-path reconstruction. Included as an external method package.
External tools and platforms
Global Flyway Network
Interactive flyway-scale tracking platform
A collaborative platform for exploring movements of tracked migratory birds, especially shorebirds. Included here as an external resource developed by close collaborators and closely connected to flyway ecology, tracking and demographic research.
Institutional context
Institutional context
Theoretical and Computational Ecology (TCE)
Research department at IBED
The group is based in the Theoretical and Computational Ecology department at the Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam.
Institutional context
Institute for Biodiversity and Ecosystem Dynamics (IBED)
University of Amsterdam research institute
IBED is the University of Amsterdam institute that hosts TCE and research across biodiversity, ecosystems and environmental dynamics.