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Methods in Ecology and Evolution
Editors: Aaron Ellison, Natalie Cooper, Nicolas Lecomte and Huijie Qiao
Journal Overview
Methods in Ecology and Evolution (MEE) is a British Ecological Society journal that promotes the development of new methods in ecology & evolution, and facilitates their dissemination and uptake by the research community.
Methods in Ecology & Evolution is now a fully Gold Open Access journal. Click here to find out more about Open Access.
Featured in Methods in Ecology and Evolution
Automation of tree-ring detection and measurements using deep learning
Core samples from trees are a critical reservoir of ecological information, informing our understanding of past climates, as well as contemporary ecosystem responses to global change. This article demonstrates the efficacy of automating the measurement of growth increment in tree core samples. This application is readily deployable as a Docker container and requires only basic command line skills. Additionally, an easy re-training option allows users to expand capabilities to other wood types.
The phruta r package: Increasing access, reproducibility and transparency in phylogenetic analyses
Current practices for assembling phylogenetic trees often recur to sequence data stored in GenBank. However, the molecular and taxonomic make-up of sequences deposited in GenBank is generally not very clear. phruta, a newly developed r package, is designed to primarily improve access to genetic data stored in GenBank.
Tracking marine tetrapod carcasses using a low-cost mixed methodology with GPS trackers, passive drifters and citizen science
Drift experiments are essential to understand stranding patterns and estimate the mortality of beached animals. Most studies do not use telemetry technology due to the high costs of this methodology This article describes a low-cost mixed methodology that includes Global Positioning System trackers, passive drifters (reused glass bottles) and Citizen Science (through an instant message platform and email) to track carcasses of marine tetrapods.
BISoN: A Bayesian framework for inference of social networks
Animal social networks are often constructed from point estimates of edge weights. In many contexts, edge weights are inferred from observational data, and the uncertainty around estimates can be affected by various factors. This article introduces a unified Bayesian framework for modelling social networks based on observational data. This framework opens up the opportunity to test new types of hypotheses, make full use of observational datasets, and increase the reliability of scientific inferences.
Underwater macrophotogrammetry to monitor in situ benthic communities at submillimetre scale
Testing four different imaging systems of varying costs though regardless of systems, 3D models always had a ground resolution which compares well with stereomicroscopy, while providing detailed 3D digital records through time. Using a coral reef example, we apply this approach to demonstrate how it can be used to monitor small reef areas through time, including the quantification of biophysical metrics such as cover of small facilitative and competitive organisms and microhabitat complexity.
Browse Articles
Cover Picture and Issue Information
- 2189-2191
- 5 September 2023
Graphical Abstract
This month's cover image introduces palaeoverse, a new R package to help streamline analyses and improve code readability and reproducibility in palaeobiology. The image provides an illustrative depiction of the functionality available in the package, such as temporal and spatial binning, calculating geographic and temporal ranges, and reconstructing the past geographic distribution of fossil occurrences. The package is described in detail in this issue and is part of Palaeoverse, an initiative aiming to bring the palaeobiology community together to share resources, reach agreed standards, and improve reproducibility in palaeobiological research. ©Miranta Kouvari and Cecily Nicholl.
Using acoustic indices in ecology: Guidance on study design, analyses and interpretation
- 2192-2204
- 10 August 2023
OpenSoundscape: An open‐source bioacoustics analysis package for Python
- 2321-2328
- 9 August 2023
HemiPy: A Python module for automated estimation of forest biophysical variables and uncertainties from digital hemispherical photographs
- 2329-2340
- 9 August 2023
Functional diversity metrics can perform well with highly incomplete data sets
- 29 September 2023
rcontroll: An R interface for the individual-based forest dynamics simulator TROLL
- 28 September 2023
Simulating capture efficiency of pitfall traps based on sampling strategy and the movement of ground‐dwelling arthropods
- 26 September 2023
euka: Robust tetrapodic and arthropodic taxa detection from modern and ancient environmental DNA using pangenomic reference graphs
- 23 September 2023
Environmental DNA-based detection of pathogens in trade and captive settings: Best practices and validation for Batrachochytrium salamandrivorans
- 23 September 2023
phytools: an R package for phylogenetic comparative biology (and other things)
- Methods in Ecology and Evolution
- 217-223
- 15 December 2011
A general and simple method for obtaining R2 from generalized linear mixed-effects models
- Methods in Ecology and Evolution
- 133-142
- 3 December 2012
A protocol for data exploration to avoid common statistical problems
- Methods in Ecology and Evolution
- 3-14
- 23 February 2010
popart: full-feature software for haplotype network construction
- Methods in Ecology and Evolution
- 1110-1116
- 1 July 2015
The use of focus group discussion methodology: Insights from two decades of application in conservation
- Methods in Ecology and Evolution
- 20-32
- 11 January 2018
A protocol for data exploration to avoid common statistical problems
- Methods in Ecology and Evolution
- 3-14
- 23 February 2010
Robustness of linear mixed‐effects models to violations of distributional assumptions
- Methods in Ecology and Evolution
- 1141-1152
- 12 June 2020
SIMR: an R package for power analysis of generalized linear mixed models by simulation
- Methods in Ecology and Evolution
- 493-498
- 17 November 2015
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