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When can we trust population trends? A method for quantifying the effects of sampling interval and duration
Hannah S. Wauchope, Tatsuya Amano, William J. Sutherland, Alison Johnston , Methods in Ecology and Evolution , 2019RFree
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Estimating recruitment from capture–recapture data by modelling spatio-temporal variation in birth and age-specific survival rates
Richard B. Chandler, Kristin Engebretsen, Michael J. Cherry, Elina P. Garrison, Karl V. Miller , Methods in Ecology and Evolution , 2018RFree
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Rapid spatial risk modelling for management of early weed invasions: Balancing ecological complexity and operational needs
Jens G. Froese, Alan R. Pearse, Grant Hamilton , Methods in Ecology and Evolution , 2019RFree
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Clustering and correlations: Inferring resilience from spatial patterns in ecosystems
Sumithra Sankaran, Sabiha Majumder, Ashwin Viswanathan, Vishwesha Guttal , Methods in Ecology and Evolution , 2019RFree
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babette: BEAUti 2, BEAST2 and Tracer for R
Richèl J. C. Bilderbeek, Rampal S. Etienne , Methods in Ecology and Evolution , 2018RFree
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embarcadero: Species distribution modelling with Bayesian additive regression trees in r
Colin J. Carlson , Methods in Ecology and Evolution , 2020RFree
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Identifying animal species in camera trap images using deep learning and citizen science
Marco Willi, Ross T. Pitman, Anabelle W. Cardoso, Christina Locke, Alexandra Swanson, Amy Boyer, Marten Veldthuis, Lucy Fortson , Methods in Ecology and Evolution , 2018PythonFree
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Disentangling herbivore impacts in primary succession by refocusing the plant stress and vigor hypotheses on phenology
Christian Che-Castaldo, Charlie M. Crisafulli, John G. Bishop, Elise F. Zipkin, William F. Fagan , Ecological Monographs , 2019HTMLFree
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Time and ecological resilience: can diurnal animals compensate for climate change by shifting to nocturnal activity?
Ofir Levy, Tamar Dayan, Warren P. Porter, Noga Kronfeld-Schor , Ecological Monographs , 2018FortranFree
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Variation in Linked Selection and Recombination Drive Genomic Divergence during Allopatric Speciation of European and American Aspens
Jing Wang, Nathaniel R. Street, Douglas G. Scofield, Pär K. Ingvarsson , Molecular Biology and Evolution , 2016ShellFree
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The ecohydrological context of drought and classification of plant responses
Xue Feng, David D. Sckerly, Todd E. Dawson, Stefano Manzoni, Rob P.Skelton, Giulia Vico, Sally E. Thompson , Ecology Letters , 2018PythonFree
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Traits linked with species invasivness and community invasiblity vary with time, stage and indicator of invasion in a long-term grassland experiment
Jane A. Catford, Annabel L. Smith, Peter D. Wragg, et al , Ecology Letters , 2019RFree
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Predicting the spread of all invasive forest pests in the United States
Emma J. Hudgins, Andrew M. Liebhlod, Brian Leung , Ecology Letters , 2017RFree
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Mapping of Multiple Complementary Sex Determination Loci in a Parasitoid Wasp
Cyril Matthey-Doret, Casper J can der Kooi, Daniel L Jeffries, Jens Bast, Alice B Dennis, Christopher Vorburger, Tanja Schwander , Genome Biology , 2019ShellFree
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Computational Models Describing Possible Mechanisms for Generation of Excessive Beta Oscillations in Parkinson’s Disease
Alex Pavlides, S. John Hogan, Rafal Bogacz , PLoS Computational Biology , 2015MATLABFree
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Cerebellar Nuclear Neurons Use Time and Rate Coding to Transmit Purkinje Neuron Pauses
Shyam Kumar Sudhakar, Benjamin Torben-Nielsen, Erik De Schutter , PLoS Computational Biology , 2015AMPLFree
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Top-down inputs drive neuronal network rewiring and context-enhanced sensory processing in olfaction
Wayne Adams , James N. Graham , Xuchen Han , Hermann Riecke , PLoS Computational Biology , 2019MATLABFree
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A Voltage-Based STDP Rule Combined with Fast BCM-Like Metaplasticity Accounts for LTP and Concurrent “Heterosynaptic” LTD in the Dentate Gyrus In Vivo
Peter Jedlicka , Lubica Benuskova , Wickliffe C. Abraham , PLoS Computational Biology , 2015AMPLFree
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Predicting vegetation type through physiological and environmental interactions with leaf traits: evergreen and deciduous forests in an earth system modeling framework
Ensheng Weng, Caroline E. Farrior, Ray Dybzinski, Stephen W. Pacala , Biogeosciences , 2016FortranFree
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A novel method for assessing climate change impacts in ecotron experiments
Inne Vanderkelen, Jakob Zscheischler, Lukas Gudmundsson, Klaus Keuler, Francois Rineau, Natalie Beenaerts, Jaco Vangronsveld, Sara Vicca & Wim Thiery , Biogeosciences , 2020MATLABFree
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Individual-based modelling of resource competition to predict density-dependent population dynamics: a case study with white storks
Damaris Zurell, Ute Eggers, Michael Kaatz, Shay Rotics, Nir Sapir, Martin Wikelski, Ran Nathan, Florian Jeltsch , Oikos , 2014C++Free
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Picky hitch-hikers: vector choice leads to directed dispersal and fat-tailed kernels in a passively dispersing mite
Emanuel A. Fronhofer, Ellen B. Sperr, Anna Kreis, Manfred Ayasse, Hans Joachim Poethke, Marco Tschapka , Oikos , 2013PascalFree
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Early modern human lithic technology from Jerimalai, East Timor
Ben Marwick,Chris Clarkson,Sue O'Connor, Sophie Collins , Journal of Human Evolution , 2016HTMLFree
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babette: BEAUti 2, BEAST2 and Tracer for R
Richèl J. C. Bilderbeek, Rampal S. Etienne , Methods in Ecology and Evolution , 2018RFree
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The case of an arctic wild ass highlights the utility of ancient DNA for validating problematic identifications in museum collections
Alisa O. Vershinina, Joshua D. Kapp, Gennady F. Baryshnikov, Beth Shapiro , Molecular Ecology Resources , 2019ShellFree
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Local temperature and ecological similarity drive distributional dynamics of tropical mammals worldwide
Lydia Beaudrot, Miguel A. Acevedo, Jean-Philippe Lessard, Alex Zvoleff, Patrick A. Jansen, Douglas Sheil, Francesco Rovero, Timothy O’Brien, Eileen Larney, Christine Fletcher, Sandy Andelman, Jorge Ahumada , Global Ecology and Biogeography , 2019RFree
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Untangling the proximate causes and underlying drivers of deforestation and forest degradation in Myanmar
Cheng Ling Lim, Graham W. Prescott, Jose Don T. De Alban, Alan D. Ziegler, Edward L. Webb , Conservation Biology , 2017QMLFree
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Seizure pathways: A model-based investigation
Philippa J. Karoly , Levin Kuhlmann, Daniel Soudry, David B. Grayden, Mark J. Cook, Dean R. Freestone , PLoS Computational Biology , 2018MATLABFree
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JTK_CYCLE: An Efficient Nonparametric Algorithm for Detecting Rhythmic Components in Genome-Scale Data Sets
Michael E. Hughes, John B. Hogenesch, Karl Kornacker , PLoS Computational Biology , 2010PythonFree
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Fast Reconstruction of Compact Context-Specific Metabolic Network Models
Nikos Vlassis , Maria Pires Pacheco , Thomas Sauter , PLoS Computational Biology , 2014PythonFree
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Deterministic response strategies in trial-and-error learning
Holger Mohr, Katharina Zwosta, Dimitrije Markovic, Sebastian Bitzer, Uta Wolfensteller, Hannes Ruge , PLoS Computational Biology , 2018MATLABFree
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momentuHMM: R package for generalized hidden Markov models of animal movement
Brett T. McClintock, Théo Michelot , Methods in Ecology and Evolution , 2018RFree
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Plants In Trait Analysis (PITA)
Nicole Diaz; Jordan Holmes , Methods in Ecology and Evolution , 2019ShellFree
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tRophicPosition, an r package for the Bayesian estimation of trophic position from consumer stable isotope ratios
Claudio Quezada-Romegialli, Andrew L. Jackson, Brian Hayden, Kimmo K. Kahilainen, Christelle Lopes, Chris Harrod , Methods in Ecology and Evolution , 2018RFree
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Algorithmic approaches to aid species' delimitation in multidimensional morphospace
Thomas HG Ezard, Paul N Pearson & Andy Purvis , BMC Evolutionary Biology , 2020RFree
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Responses of non-native earthworms to experimental eradication of garlic mustard and implications for native vegetation
K. A. Stinson, S. D. Frey, M. R. Jackson, E. Coates-Connor, M. Anthony, K. Martinez , Ecosphere , 2018RFree
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GeneFuse: detection and visualization of target gene fusions from DNA sequencing data
Shifu Chen, Ming Liu, Tanxiao Huang, Wenting Liao, Mingyan Xy, Jia Gu , International Journal of Biological Sciences , 2018CFree
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Lateral Gene Transfer Shapes the Distribution of RuBisCO among Candidate Phyla Radiation Bacteria and DPANN Archaea
Alexander L Jaffe, Cindy J Castelle, Christopher L Dupont, Jillian F Banfield , Archaea , 2018Jupyter NotebookFree
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Improving the estimation of genetic distances from Next-Generation Sequencing data
Filipe G. Vieira, Florent Lassalle, Thorfinn S. Korneliussen, Matteo Fumagalli , Biological Journal of the Linnean Society , 2015C++Free
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Ecological variability is associated with functional trait diversity in the western fence lizard (Sceloporus occidentalis)
Van Wishingrad, Robert C Thomson , Biological Journal of the Linnean Society , 2019HTMLFree
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Estimating morphological diversity and tempo with discrete character-taxon matrices: implementation, challenges, progress, and future directions
Graeme T. Lloyd , Biological Journal of the Linnean Society , 2016RFree
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How should we estimate diversity in the fossil record? Testing richness estimators using sampling-standardised discovery curves
Roger A. Close, Serjoscha W. Evers, John Alroy, Richard J. Butler , Ecology and Evolution , 2018RFree
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Social support drives female dominance in the spotted hyaena
Colin Vullioud, Eve Davidian, Bettina Wachter, François Rousset, Alexandre Courtiol & Oliver P. Höner , Ecology and Evolution , 2018RFree
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Foraging strategies of insects for gathering nectar and pollen, and implications for plant ecology and evolution
DaveGoulsona , Perspectives in Plant Ecology, Evolution and Systematics , 1078PythonFree
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THE USE OF MULTIPLE MEASUREMENTS IN TAXONOMIC PROBLEMS
R. A. FISHER Sc.D., F.R.S. , Annals of the Missouri Botanical Garden , 1936PythonFree
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A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing
Richard O. Prum, Jacob S. Berv, Alex Dornburg, Daniel J. Field, Jeffrey P. Townsend, Emily Moriarty Lemmon & Alan R. Lemmon , Evolutionary Biology , 2015JavaFree
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Cradles and museums of Antarctic teleost biodiversity
Alex Dornburg, Sarah Federman, April D. Lamb, Christopher D. Jones & Thomas J. Near , Evolutionary Biology , 2017RFree
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Sample size required to characterize area use of tracked seabirds
Chris B. Thaxter, Nigel A. Clark, Viola H. Ross-Smith, Greg J. Conway, Willem Bouten, Niall H. K. Burton , Journal of Wildlife Management , 2017RFree
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The predictability of ecological stability in a noisy world
Qiang Yang, Mike S. Fowler, Andrew L. Jackson & Ian Donohue , Food Webs , 2019HTMLFree
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Do high Arctic coastal food webs rely on a terrestrial carbon subsidy?
Carolynn M.Harris, Nathan D. McTigue, James McClelland, Kenneth H. Dunton , Food Webs , 2018RFree
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The Importance of Mesozooplankton Diel Vertical Migration for Sustaining a Mesopelagic Food Web
Thomas B. Kelly, Peter C. Davison, Ralf Goericke, Michael R. Landry, Mark D. Ohman, Michael R. Stukel , Food Webs , 2019RFree
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A Galaxy-based bioinformatics pipeline for optimised, streamlined microsatellite development from Illumina next-generation sequencing data
Sarah M. Griffiths, Graeme Fox, Peter J. Briggs, Ian J. Donaldson, Simon Hood, Pen Richardson, George W. Leaver, Nathan K. Truelove & Richard F. Preziosi , Conservation Genetics Resources , 2016PythonFree
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Limited scope for latitudinal extension of reef corals
Paul R. Muir, Carden C. Wallace, Terence Done, J. David Aguirre , Frontiers of Biogeography , 2015RFree
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Mechanistic model predicts tissue–environment relationships and trophic shifts in animal hydrogen and oxygen isotope ratios
Sarah Magozzi, Hannah B. Vander Zanden, Michael B. Wunder & Gabriel J. Bowen , Oecologia , 2019RFree
-
Algorithmic approaches to aid species' delimitation in multidimensional morphospace
Thomas HG Ezard, Paul N Pearson & Andy Purvis , BMC Evolutionary Biology , 2020RFree
-
Individual-based modelling of resource competition to predict density-dependent population dynamics: a case study with white storks
Damaris Zurell, Ute Eggers, Michael Kaatz, Shay Rotics, Nir Sapir, Martin Wikelski, Ran Nathan, Florian Jeltsch , Oikos , 2014C++Free
-
Kinetics and Identities of Extracellular Peptidases in Subsurface Sediments of the White Oak River Estuary, North Carolina
Andrew D. Steen, Richard T. Kevorkian, Jordan T. Bird, Nina Dombrowski et al , Environmental Microbiology , 2019RFree
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Habitat and fishing control grazing potential on coral reefs
James P. W. Robinson, Jamie M. McDevitt-Irwin, Jan-Claas Dajka, Jeneen Hadj-Hammou, Samantha Howlett, Alexia Graba-Landry, Andrew S. Hoey, Kirsty L. Nash , Functional Ecology , 2019RFree
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Network inference reveals novel connections in pathways regulating growth and defense in the yeast salt response
Matthew E. MacGilvray , Evgenia Shishkova , Deborah Chasman, Michael Place, Anthony Gitter, Joshua J. Coon, Audrey P. Gasch , PLoS Computational Biology , 2018GAMSFree
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Prefrontal Cortical Mechanisms Underlying Individual Differences in Cognitive Flexibility and Stability
Diana J. N. Armbruster, Kai Ueltzhöffer, Ulrike Basten, Christian J. Fiebach , PLoS Computational Biology , 2012ScilabFree
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External Drive to Inhibitory Cells Induces Alternating Episodes of High- and Low-Amplitude Oscillations
Oscar J. Avella Gonzalez, Karlijn I. van Aerde, Ronald A. J. van Elburg, Simon-Shlomo Poil, Huibert D. Mansvelder, Klaus Linkenkaer-Hansen, Jaap van Pelt, Arjen van Ooyen , PLoS Computational Biology , 2012MATLABFree
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Dendritic Nonlinearities Reduce Network Size Requirements and Mediate ON and OFF States of Persistent Activity in a PFC Microcircuit Model
Athanasia Papoutsi, Kyriaki Sidiropoulou, Panayiota Poirazi , PLoS Computational Biology , 2014AMPLFree
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Cerebellar Nuclear Neurons Use Time and Rate Coding to Transmit Purkinje Neuron Pauses
Shyam Kumar Sudhakar, Benjamin Torben-Nielsen, Erik De Schutter , PLoS Computational Biology , 2015AMPLFree
-
Fast Reconstruction of Compact Context-Specific Metabolic Network Models
Nikos Vlassis , Maria Pires Pacheco , Thomas Sauter , PLoS Computational Biology , 2014PythonFree
-
Why are metapopulations so rare?
Emanuel A. Fronhofer, Alexander Kubisch, Frank M. Hilker, Thomas Hovestadt, Hans Joachim Poethke , Conservation Biology , 2012PascalFree
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Allelic diversity for neutral markers retains a higher adaptive potential for quantitative traits than expected heterozygosity
Ana Vilas, Andrés Pérez-Figueroa, Humberto Quesada, Armando Caballero , Molecular Ecology , 2015ShellFree
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The case of an arctic wild ass highlights the utility of ancient DNA for validating problematic identifications in museum collections
Alisa O. Vershinina, Joshua D. Kapp, Gennady F. Baryshnikov, Beth Shapiro , Molecular Ecology Resources , 2019ShellFree
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The r package divDyn for quantifying diversity dynamics using fossil sampling data
Ádám T. Kocsis, Carl J. Reddin, John Alroy, Wolfgang Kiessling , Methods in Ecology and Evolution , 2019RFree
-
Assessing adequacy of models of phyletic evolution in the fossil record
Kjetil Lysne Voje , Methods in Ecology and Evolution , 2018RFree
-
Automatic generation of evolutionary hypotheses using mixed Gaussian phylogenetic models
Venelin Mitov, Krzysztof Bartoszek, and Tanja Stadler , Methods in Ecology and Evolution , 2019RFree
-
An r package and online resource for macroevolutionary studies using the ray-finned fish tree of life
Jonathan Chang, Daniel L. Rabosky, Stephen A. Smith, Michael E. Alfaro , Methods in Ecology and Evolution , 2019RFree
-
For everything there is a season: Analysing periodic mortality patterns with the cyclomortr package
Eliezer Gurarie, Peter R. Thompson, Allicia P. Kelly, Nicholas C. Larter, William F. Fagan, Kyle Joly , Methods in Ecology and Evolution , 2019RFree
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raptr: Representative and adequate prioritization toolkit in R
Jeffrey O. Hanson, Jonathan R. Rhodes, Hugh P. Possingham, Richard A. Fuller , Methods in Ecology and Evolution , 2017RFree
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Performance of multistate mark–recapture models for temporary emigration in the presence of survival costs
Klaus Henle, Bernd Gruber , Methods in Ecology and Evolution , 2017C++Free
-
Ecological resistance surfaces predict fine-scale genetic differentiation in a terrestrial woodland salamander
William E. Peterman, Grant M. Connette, Raymond D. Semlitsch, Lori S. Eggert , Methods in Ecology and Evolution , 2014RFree
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Drones and convolutional neural networks facilitate automated and accurate cetacean species identification and photogrammetry
Patrick C. Gray, Kevin C. Bierlich, Sydney A. Mantell, Ari S. Friedlaender, Jeremy A. Goldbogen, David W. Johnston , Methods in Ecology and Evolution , 2019Jupyter NotebookFree
-
A quantitative framework for investigating the reliability of empirical network construction
Alyssa R. Cirtwill, Anna Eklöf, Tomas Roslin, Kate Wootton, Dominique Gravel , Methods in Ecology and Evolution , 2019RFree
-
A practical method to account for variation in detection range in acoustic telemetry arrays to accurately quantify the spatial ecology of aquatic animals
Jacob W. Brownscombe, Lucas P. Griffin, Jacqueline M. Chapman, Danielle Morley, Alejandro Acosta, Glenn T. Crossin, Sara J. Iverson, Aaron J. Adams, Steven J. Cooke, Andy J. Danylchuk , Methods in Ecology and Evolution , 2019RFree
-
Paleontological baselines for evaluating extinction risk in the modern oceans
Seth Dinnegan, Sean C. Anderson, Paul G. Harnik, Carl Suimpson, Derek P. Tittensor , Methods in Ecology and Evolution , 2015Jupyter NotebookFree
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Machine learning to classify animal species in camera trap images: Applications in ecology
Michael A. Tabak, Mohammad S. Norouzzadeh, David W. Wolfson, Steven J. Sweeney, Kurt C. Vercauteren, Nathan P. Snow, Joseph M. Halseth, Paul A. Di Salvo , Methods in Ecology and Evolution , 2018RFree
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A guide to the application of Hill numbers to DNA-based diversity analyses
Antton Alberdi, M. Thomas P. Gilbert , Methods in Ecology and Evolution , 2019RFree
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Towards an ecological trait-data standard
Florian D. Schneider, David Fichtmueller, Martin M. Gossner, Anton Güntsch, Malte Jochum, Birgitta König-Ries, Gaëtane Le Provost, Peter Manning , Methods in Ecology and Evolution , 2019RFree
-
A New Method for Estimation of Resource Selection Probability Function
SUBHASH R. LELE , Methods in Ecology and Evolution , 2010RFree
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Microclima: An r package for modelling meso- and microclimate
Ilya M. D. Maclean, Jonathan R. Mosedale, Jonathan J. Bennie , Methods in Ecology and Evolution , 2018RFree
-
Estimating the volume and age of water stored in global lakes using a geo-statistical approach
Mathis Loïc Messager, Bernhard Lehner, Günther Grill, Irena Nedeva, Oliver Schmitt , Frontiers in Ecology and the Environment , 2016PythonFree
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A Fast Algorithm for Joint Reconstruction of Ancestral Amino Acid Sequences
Tal Pupko, Itsik Pe, Ron Shamir, Dan Graur , Molecular Biology and Evolution , 2000PythonFree
-
Ecology Under Lake Ice
Stephaine E. Hamptopn, Aaron W. E. Galloway, et al , Ecology Letters , 2016RFree
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Scaling metabolism from individuals to reef-fish communities at broad spatial scales
D.R. Barneche, M.Kulbicki, S.R. Floeter, A.M. Friendlander, J.Maina, A.P Allen , Ecology Letters , 2014RFree
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Trasnlucent windows: how uncertainty in competitive interactions impacts detection of community pattern
Rafael D'Andrea, Annette Ostling, James P. O'Dwyer , Ecology Letters , 2018RFree
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Unifying Species Diversity, Phylogenetic Diversity, Functional Diversity, and Related Similarity and Differentiation Measures Through Hill Numbers
Anne Chao, Chun-Huo Chiu, Lou Jost , Annual Review of Ecology, Evolution, and Systematics , 2014RFree
-
Single-cell transcriptomics unveils gene regulatory network plasticity
Giovanni Iancono, Ramon Massoni-Badosa, Holger Heyn , Genome Biology , 2019HTMLFree
-
Ecological resistance surfaces predict fine-scale genetic differentiation in a terrestrial woodland salamander
William E. Peterman, Grant M. Connette, Raymond D. Semlitsch, Lori S. Eggert , Methods in Ecology and Evolution , 2014RFree
-
Estimating species richness and accumulation by modelling species occurrence and detectability.
Robert M. Dorazio, J. Andrew Royle, Bo Söderström, Anders Glimskär , Methods in Ecology and Evolution , 2016PythonFree
-
pavo2: New tools for the spectral and spatial analysis of colour in r
Rafael Maia, Hugo Gruson, John A. Endler, Thomas E. White , Methods in Ecology and Evolution , 2019RFree
-
BA3-SNPs: Contemporary migration reconfigured in BayesAss for next-generation sequence data
Steven M. Mussmann, Marlis R. Douglas, Tyler K. Chafin, Michael E. Douglas , Methods in Ecology and Evolution , 2019PythonFree
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A package for motif analyses of bipartite networks
Benno I. Simmons, Michelle J. M. Sweering, Maybritt Schillinger, Lynn V. Dicks, William J. Sutherland, Riccardo Di Clemente , Methods in Ecology and Evolution , 2019RFree
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Parallel Likelihood Calculation for Phylogenetic Comparative Models: the SPLITT C++ Library
Venelin Mitov, Tanja Stadler , Methods in Ecology and Evolution , 2019ShellFree
-
Filling reference gaps via assembling DNA barcodes using high-throughput sequencing—moving toward barcoding the world
Shanlin Liu, Chentao Yang, Chengran Zhou, Xin Zhou , Methods in Ecology and Evolution , 2017PythonFree
-
A guide to the application of Hill numbers to DNA-based diversity analyses
Antton Alberdi, M. Thomas P. Gilbert , Methods in Ecology and Evolution , 2019RFree
-
GRAPHITE: A graphical environment for scalable in situ video tracking of moving insects
Blair J. Rossetti, Travis Dynes, Berry Brosi, Jacobus C. de Roode, Jun Kong , Methods in Ecology and Evolution , 2017MatlabFree
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