Journal articles and book chapters

In press

  • Law, R. and Barry, J. (in press) Long-term time-trends in organohalogen concentrations in blubber of porpoises from the UK. Proceedings of the ECS-AS COBANS-ACCOBAMS workshop.
  • Hooten, M.B. and Johnson, D.S. (2017 in press) Basis function models for animal movement. Journal of the American Statistical Association.
  • Hooten, M.B., Johnson, D.S., McClintock, B.T., and Morales, J.M. (2017 in press) Animal Movement: Statistical Models for Telemetry. CRC Press, 289pp.

2017

2016

  • Buckland, S.T. and Morgan, B.J.T. (2016) 50-Year Anniversary of Papers by Cormack, Jolly and Seber
    Statistical Science, 31, 2, 141.
  • Buckland S.T., Oedekoven, C.S. and Borchers, D.L. (2016) Model-based distance sampling. Journal of Agricultural, Biological and Environmental Statistics. 21 (1) 58-75.
  • Donovan, C., Harwood, J., King, S., Booth, C., Caneco, B., & Walker, C. (2016). “Expert elicitation methods in quantifying the consequences of acoustic disturbance from offshore renewable energy developments”. In The Effects of Noise on Aquatic Life II (pp. 231-237). Springer New York.
  • Erichson, N. B., & Donovan, C. (2016). Randomized low-rank Dynamic Mode Decomposition for motion detection. Computer Vision and Image Understanding, 146, 40-50.
  • Harwood, J., King, S., Booth, C., Donovan, C., Schick, R. S., Thomas, L., & New, L. (2016). “Understanding the Population Consequences of Acoustic Disturbance for Marine Mammals”. In The Effects of Noise on Aquatic Life II (pp. 417-423). Springer New York.
  • Johnson, D. S., J. L. Laake, S. R. Melin, and R. L. DeLong. (2016) Multivariate state hidden Markov models for mark-recapture data. Stat. Sci. 31:233–244. DOI: 10.1214/15-STS542
  • Lucke, K, Hastie, GD, Ternes, K, McConnell, BJ, Moss, S, Russell, DJ, Weber, H & Janik, V. (2016), Phoca vitulina) using auditory brainstem responses. Journal of Comparative Physiology A: Neuroethology, Sensory, Neural, and Behavioral Physiology 202, (12) 859-868.
  • Matechou, E., McCrea, R.S., Morgan, B.J.T., Nash, D. and Griffiths, R.A.. (2016) Open models for removal data. Annals of Applied Statistics, 10, 3, 1572-1589. ISSN 1932-6157. E-ISSN 1941-7330. (doi:10.1214/16-AOAS949)
  • Paxton, C.G.M. (2016) ‘Unleashing the Kraken: on the maximum length in giant squid (Architeuthis sp.)’ Journal of Zoology. 300 (2) pp 82-88. DOI: 10.1111/jzo.12347

2015

  • Bagchi, R. and Illian, J.B. (2015) A method for analyzing replicated point patterns in ecology. Methods in Ecology and Evolution 6 (4) 482-490
  • Capuzzo, E., Stephens, D., Silva, T., Barry, J. and Forster, R. (2015) Decrease in water clarity of the southern and central North Sea during the twentieth-century. Global Change Biology. 21 (6), 2206 – 2214.
  • Conn, P.B., Johnson, D.S., Ver Hoef, J. M., Hooten, M.B., London, J.L. and Boveng, P.L. (2015) Using spatio-temporal statistical models to estimate animal abundance and infer ecological dynamics from survey counts.  Ecological Monographs 85: 235-252.
  • King, S. L., Schick, R. S., Donovan, C., Booth, C. G., Burgman, M., Thomas, L., & Harwood, J. (2015). “An interim framework for assessing the population consequences of disturbance”. Methods in Ecology and Evolution, 6(10), 1150-1158.
  • Moffat, C., Goncalves Pacheco, J., Sharpe, S., Samson, A.J., Bollan, K.A., Huang, J., Buckland, S.T. and Connolly, C.N. (2015) Chronic exposure to imidacloprid increases neuronal vulnerability to mitochondrial dysfunction in bumblebees. Federation of American Societies of Experimental Biology Journal 29 (5) 2112-2119.
  • Pirotta, E., Thompson, P. M., Cheney, B., Donovan, C. R., & Lusseau, D. (2015). “Estimating spatial, temporal and individual variability in dolphin cumulative exposure to boat traffic using spatially explicit capture–recapture methods”. Animal Conservation, 18(1), 20-31.
  • Pirotta, E., Harwood, J., Thompson, P.M., New, L., Cheney, B., Arso, M., Hammond, P.S., Donovan, C. and Lusseau, D., (2015). “Predicting the effects of human developments on individual dolphins to understand potential long-term population consequences”. In Proc. R. Soc. B (Vol. 282, No. 1818, p. 20152109). The Royal Society.
  • Pocock, M.J.O., Newson, S.E., Henderson, I.G., Peyton, J., Sutherland, W.J., Noble, D.G., Ball, S.G., Beckman, B.C., Biggs, J., Brereton, T., Bullock, D.J., Buckland, S.T., Edwards, M., Eaton, M.A., Harvey, M.C., Hill, M.O., Horlock, M., Hubble, D.S., Julian, A.M., Mackey, E.C., Mann, D.J., Marshall, M.J., Medlock, J.M., O’Mahony, E.M., Pacheco, M., Porter, K., Prentice, S., Procter, D.A., Roy, H.E., Southway, S.E., Shortall, C.R., Stewart, A.J.A., Wembridge, D.E., Wright, M.A. and Roy, D.B. (2015) Developing and enhancing biodiversity monitoring programmes: a collaborative assessment of priorities. J. App. Ecol 52 (3) 686-695.
  • Rekdal, S.L., Hansen, R.G., Borchers, D.L., Bachmann, L., Laidre, K.L., Wiig, O., Nielsen, N.H., Fossette, S., Tervo, O. and Heide-Jørgensen, M.P. (2015) Trends in bowhead whales in West Greenland: Aerial surveys vs. genetic capture-recapture analyses. Marine Mammal Science 31: 133-154.
  • Sousa, A.G. and Harris, D. (2015) Description and seasonal detection of two potential whale calls recorded in the Indian Ocean. Journal of the Acoustical Society of America 138, (3) 1379-1388.

2014

  • Besbeas, P.T. and Morgan, B.J.T. (2014) Goodness of fit of integrated population models using calibrated simulation. Methods in Ecology and Evolution, 5, 1373-1382.
  • Gimenez, O., Buckland, S.T., Morgan, B.J.T., Bez, N., Bertrand, S., Choquet, R., Dray, S., Etienne, M.-P., Fewster, R., Gosselin, F., Mérigot, B., Monestiez, P., Morales, J., Mortier, F., Munoz, F., Ovaskainen, O., Pavoine, S., Pradel, R., Schurr, F.M., Thomas, L., Thuiller, W., Trenkel, V., de Valpine, P. and Rexstad, E. (2014) Statistical ecology comes of age. Biology Letters 10 20140698.
  • Harrison, P.J., Buckland, S.T., Yuan, Y., Elston, D.A., Brewer, M.J., Johnston, A. and Pearce-Higgins, J.W. (2014) Assessing trends in biodiversity over space and time using the example of British breeding birds. J. App. Ecol. 51 1650-1660.
  • Hastie, G. D., Donovan, C., Götz, T. & Janik, V. M. (2014) “Behavioral responses by grey seals (Halichoerus grypus) to high frequency sonar.” Marine pollution bulletin.
  • Johnson, Devin S., and Lowell Fritz. “agTrend: A Bayesian approach for estimating trends of aggregated abundance.” Methods in Ecology and Evolution 5.10 (2014): 1110-1115.
  • King, R., Bird, S. M., Overstall, A. M., Hay, G. and Hutchinson, S. J. (2014) Estimating Prevalence of Injecting Drug Users and Associated Death Rates in England Using Regional Data and Incorporating Prior Information. Journal of the Royal Statistical Society: Series A. 77 209-236.
  • King, R., Bird, S. M., Overstall, A. M., Hay, G. and Hutchinson, S. J. (2014) Injecting Drug Users in Scotland, 2006: Number, Demography, and Opiate-related Death-rates. Addiction Research and Theory. 77 209-236.
  • Lahoz-Monfort, J.J., Guillera-Arroita, G. and Wintle, B.A. (2014) Imperfect detection impacts the performance of species distribution models. Global Ecology and Biogeography. 23 (4) 504-515.
  • Lahoz-Monfort, J.J., Harris, M.P., Morgan, B.J.T., Freeman, S.N. and Wanless, S. (2014) Exploring the consequences of reducing survey effort for detecting individual and temporal variability in survival. Journal of Applied Ecology, 51 (2) 534-543.
  • Laake, J. L., D. Johnson, D. R. Diefenbach, and M. A. Ternent. (2014) Hidden Markov model for dependent mark loss and survival estimation. J. Agric. Biol. Environ. Stat. 19:522–538. DOI 10.1007/s13253-014-0190-1
  • McClintock, B.T., Bailey, L.L., Dreher, B.P. and Link, W.A. (2014) Probit models for capture–recapture data subject to imperfect detection, individual heterogeneity and misidentification. The Annals of Applied Statistics 8, 2461-2484.
  • McCrea, R.S., Morgan, B.J.T. and Pradel, R. (2014) Diagnostic goodness-of-fit tests for joint recapture and recovery models. Journal of Agricultural, Biological and Environmental Statistics, 19, 338-356.
  • Read, A.J., Barco, S., Bell, J. Borchers, D.L., Burt, M.L., Cummings, E.W., Dunn, J., Fougeres, E.R., Hazen, L., Williams Hodge, L.E., Laura, A., McAlarney, R.J., Nilsson, P., Pabst, D.A., Paxton, C.G.M., Schneider, S.Z., Urian, K.W., Waples, D.M., McLellan, W.A. (2014) Occurrence, Distribution and Abundance of Cetaceans in Onslow Bay, North Carolina, USA. Journal of Cetacean Research and Management 14 23-25.
  • Rumney, H.S., Potter, K., Mellor, P. K., Brant, J., Whomersley, P., Shaw, S., Barry, J., Kirby, M.F., and Law, R.J. (2014) Polycyclic aromatic hydrocarbons in fish from St Helena, South Atlantic, in relation to an historic wreck. Marine Pollution Bulletin 89 (1-2) 451-454.
  • Ver Hoef, J.M. and Temesgen, H. (2014) A comparsion of the spatial linear model to nearest neighbor (k-NN) methods for forestry applications. (2014) PloS ONE 8 (3) e59129. doi:10.1371/journal.pone.0059129

2013

  • Arranz, P., Borchers, D.L., Aguilar Soto, N., Johnson, M. and Cox, M. (2013) A new method to study inshore whale cue distribution from land-based observations. Marine Mammal Science. 30: 810–818.
  • Bode, N.W.F., Codling, E.A. (2013) Human exit route choice in virtual crowd evacuations. Animal Behaviour, 86 347-358.
  • Borchers, D.L., Zucchini,W., Heide-Jørgensen, M.P., Cañadas, A. and Langrock, R. (2013) Using Hidden Markov Models to Deal with Availability Bias on Line Transect Surveys. Biometrics 69 (3) 703-713.
  • Côrtes, M.C. and Illian, J.B. (2013) Fine-scale spatial pattern and genetic structure of an Amazonian herb across a heterogeneous landscape. Journal of Ecology
  • Cox, M.J., Borchers, D.L., Kelly, N. (2013) nupoint: An R package for density estimation from point transects in the presence of nonuniform animal density. Methods in Ecology and Evolution, 4: 589–594.
  • Dawson, S., Fletcher, D. and Slooten, E. (2013) Habitat use and conservation of an endangered dolphin. Endangered Species Research 21:45-54
  • Dornelas, M., Magurran, A., Buckland, S.T., Chao, A., Chazdon, R.L., Colwell, R.K., Curtis, T., Gaston, K.J., Gotelli, N.J., Kosnik, M.A., McGill, B., McCune, J.L., Morlon, H., Mumby, P.J., Øvreås, L., Studeny, A. and Vellend, M. (2013) Quantifying temporal change in biodiversity: challenges and opportunities. Proceedings of the Royal Society B: Biological Sciences. 280, 1750, art. no. 20121931.
  • Fletcher, D., Moller, H., Clucas, R., Bragg, C., Scott, D., Scofield, P., Hunter, C., Win, I., Newman, L., McKechnie, S. de Cruz, J. and Lyver. P. (2013) Age at first return to the breeding colony and juvenile survival of Sooty Shearwaters. The Condor 115:465-476
  • Hammond, P.S., Macleod, K., Berggren, P., Borchers, D.L., Burt, M.L., Cañadas, A., Desportes, G., Donovan, G.P., Gilles, A., Gillespie, D., Gordon, J., Hedley, S., Hiby, L., Kuklik, I., Leaper, R., Lehnert, K., Leopold, M., Lovell, P., Øien, N., Paxton, C., Ridoux, V., Rogan, E., Samarra, F., Scheidat, M., Sequeira, M., Siebert, U., Skov, H., Swift, R., Tasker, M.L., Teilmann, J., Van Canneyt, O. and Vázquez, J.A. (2013) Cetacean abundance and distribution in European Atlantic shelf waters to inform conservation and management. Biological Conservation, 164: 107-122.
  • Harris, K.J. and Blackwell, P.G. (2013) Flexible Continuous-Time Modelling for Heterogeneous Animal Movement. Ecological Modelling. 255 29-37.
  • Jackson, H., Morgan, B.J.T. and Groombridge, J.J. (2013) How closely do measures of mitochondrial DNA control region diversity reflect recent trajectories of population decline in birds?
    Conservation Genetics, 14, 1291-1296.
  • Kéry, M., Guillera-Arroita, G. and Lahoz-Monfort, J.J. (2013) Analysing and mapping species range dynamics using occupancy models. Journal of Biogeography. 40 (8), 1463-1474.
  • Lahoz-Monfort, J.J., Morgan, B.J.T., Harris, M.P., Daunt, F., Wanless, S. and Freeman, S.N. (2013) Breeding together: modeling productivity synchrony at a multi-species community. Ecology. 94 (1), 3-10.
  • Langrock, R. and King, R. (2013) Maximum Likelihood Estimation of Mark-recapture-recovery models in the Presence of Continuous Covariates. Annals of Applied Statistics. 7, 1709-1732.
  • Law, R., Bersuder, P., Barry, J., Barber, J., Deaville, R. and Jepson, P. (2013) Organochlorine pesticides and chlorobiphenyls in the blubber of bycaught female common dolphins from England and Wales. Marine Pollution Bulletin Baseline, 69, 238-242.
  • Lewis, N.D., Morozov, A., Breckels, M.N., Steinke, M., Codling, E.A. (2013) Multitrophic interactions in the sea: assessing the effect of infochemical-mediated foraging in a 1-d spatial model. Mathematical Modelling of Natural Phenomena. 8 25-44.
  • McCrea, R.S., Morgan, B.J.T. and Cole, D.J. (2013) Age-dependent mixture models for recovery data on animals marked at unknown age. Journal of the Royal Statistical Society Series C, Applied Statistics. 62 (1) 101-113.
  • Matechou, E., Morgan, B.J.T., Pledger, S., Collazo, J.A. and Lyons, J.E. (2013) Integrated analysis of capture-recapture-resighting data and counts of unmarked birds at stop-over sites. Journal of Agricultural, Biological, and Environmental Statistics. 18 120-135. DOI: 10.1007/s13253-013-0127-0
  • New, L. F., Harwood, J., Thomas, L., Donovan, C., Clark, J. S., Hastie, G., Thompson, P. M., Cheney, B., Scott‐Hayward, L. & Lusseau, D. (2013) “Modelling the biological significance of behavioural change in coastal bottlenose dolphins in response to disturbance.” Functional Ecology 27, (2). 314-322.
  • Plumptre, A.J., Sterling, E.J. and Buckland, S.T. (2013) Primate census and survey techniques. Primate Ecology and Conservation: A Handbook of Techniques (eds E.J. Sterling, N. Bynum and M.E. Blair). Pp. 10-26. Oxford University Press, Oxford.
  • Townley, S. and Ezard, T.H.G. (2013) A G matrix analogue to capture the cumulative effects of non-genetic inheritance. J. Evol. Biol. 26, 1234-1243.

2012

  • Augustin, N.H., Sauleau, E-A. and Wood, S.N. (2012) On quantile quantile plots for generalized linear models. Computational Statistics & Data Analysis 56 (8), 2404-2409.
  • Borkin, K.M., Summers, R.W. and Thomas, L. (2012) Distribution, density and stand-type preferences of wood ant Formica spp.nest mounts in a Scots pinewood. European Journal of Entomology. 109, 47-53.
  • Broughton, R.K., Hill, R.A., Freeman, S.N., Bellamy, P.E. and Hinsley, S.A. (2012) Describing habitat occupation by woodland birds using territory mapping and remote sensing data: an example using the Marsh Tit (Poecile palustris). Condor 114(4), 812-822.
  • Buckland, S.T., Baillie, S.R., Dick, J. McP., Elston, D.A., Magurran, A.E., Scott, E.M., Smith, R.I., Somerfield, P.J., Studeny, A.C. and Watt, A. (2012) How should regional biodiversity be monitored? Environmental and Ecological Statistics.19 (4), 601-626.
  • Burt, M.L., Ensor, P. and Borchers, D.L. (2012) Detection probability of Antarctic minke whales: analyses of the BT mode experiments conducted on the IWC-SOWER cruises 2005/06– 2007/08. Journal of Cetacean Research and Management. 12, (3), 307-316.
  • Choquet, R. and Cole, D.J. (2012) A Hybrid Symbolic-Numerical Method for Determining Model Structure. Mathematical Biosciences, 236, 117-125.
  • Clucas, R., Moller, H., Bragg, C., Fletcher, D., Lyver, P. and Newman, J. Rakiura (2012) Maori muttonbirding diaries: monitoring trends in titi (puffinus griseus) abundance in New Zealand. New Zealand Journal of Zoology 39 155-177.
  • Cole, D.J., Morgan, B.J.T., Catchpole, E.A. and Hubbard, B. A. (2012) Parameter Redundancy in Mark-Recovery Models. Biometrical Journal 54, 507-523.
  • Fletcher, D. (2012) Estimating overdispersion when fitting a generalized linear model to sparse data. Biometrika 99, 230–237.
  • Fletcher, D. and Turek, D. (2012) Model-averaged profile likelihood intervals. Journal of Agricultural, Biological and Environmental Statistics 17, 38–51.
  • Freeman, S.N. and Besbeas, P. (2012) Quantifying changes in abundance without counting animals: extensions to a method of fitting integrated population models. Journal of Ornithology 152 (Suppl 2), 409-418
  • Guillera-Arroita, G., Ridout, M.S., Morgan, B.J.T. and Linkie, M. (2012) Models for species-detection data collected along transects in the presence of abundance-induced heterogeneity and clustering in the detection process. Methods in Ecology and Evolution, 3 (2), 358-367.
  • Hayman, D.T.S., Fooks, A.R., Rowcliffe, J.M., McCrea, R.S., Restif, O., Baker, K., Suu-Ire, R., Cunningham, A. and Wood, J. (2012) Endemic Lagos bat virus infection in Staw-coloured fruit bats. Epidemiology and Infection. 1, (1), 1-9.
  • Hayman, D.T.S., McCrea, R.S., Restif, O., Suu-Ire, R., Fooks, A.R., Wood, J.L.N., Cunningham, A. and Rowcliffe, J.M. (2012) Straw-coloured fruit bat demography in Ghana. Journal of Mammalogy. 93, (5), 1393-1404.
  • Heide-Jorgensson, M. P. , Leidre, K. L. , Hansen, R. G. , Burt, M. L. , Simon, M. , Borchers, D. L. , Hansen, J. , Harding, K. , Rasmussen, M. , Dietz, R. & Teilmann, J. (2012) Rate of increase and current abundance of humpback whales in West Greenland. Journal of Cetacean Research and Management.12,(1) 1-14.
  • Illian, J.B., Sørbye, S.H. and Rue, H. (2012) A toolbox for fitting complex spatial point process models using integrated nested Laplace approximation (INLA). Annals of Applied Statistics. 6:4, 1499-1530.
  • Illian, J.B., Søerbye, S.H., Rue, H. and Hendrichsen, D. (2012) Using INLA To Fit A Complex Point Process Model With Temporally Varying Effects – A Case Study. Journal of Environmental Statistics. 3, 7.
  • King, R. (2012) A Review of Bayesian State-Space Modelling of Capture-Recapture-Recovery Data. Interface Focus 2, 190-204.
  • Guillera-Arroita, G. and Lahoz-Monfort, J.J. (2012) Designing studies to detect changes in species occupancy: power analysis under imperfect detection. Methods in Ecology and Evolution, 3, 860-869.
  • Langrock, R. (2012) Flexible latent-state modelling of Old Faithful’s eruption inter-arrival times in 2009. Australian & NZ Journal of Statistics, 54, 261-279.
  • Law, R.J., Barry, J., Barber, J.L., Bersuder,P., Deaville, R., Reid, R.J., Brownlow, A., Penrose, R., Barnett, J., Loveridge, J. and Jepson, P.D. (2012) Contaminants in cetaceans from UK waters: status as assessed within the Cetacean Strandings Investigation Programme from 1990 to 2008. Marine Pollution Bulletin. 64, 1485-1494.
  • McCrea, R.S. (2012) Sufficient statistics likelihood construction for age- and time-dependent multi-state joint recapture and recovery data. Statistics and Probability Letters. 82 357-359.
  • McCrea, R.S., Morgan, B.J.T. and Bregnballe, T. (2012) Model comparison and assessment for multi-state capture-recapture-recovery models. Journal of Ornithology. 152 (Suppl 2), S293–S303.
  • McCrea, R.S., Morgan, B.J.T., Brown, D.I. and Robinson, R.A. (2012) Conditional modelling of ring-recovery data. Methods in Ecology and Evolution.3 (5), 823-831.
  • Mateos, M., Arroyo, G.M. and Thomas, L. (2012) The development and use of a method to fill time gaps in migration counts: seabird conservation applications. The Condor. 114, (3), 513-522.
  • Morgan, B.J.T. and Viallefont, A. (2012) Ornithological data. Encyclopedia of Environmetrics, 2nd edition, A.-H. El-Shaarawi and W. Peigorsch (eds), Wiley, Chichester, 1881-1886.
  • New, L.F., Buckland, S.T., Redpath, S. and Matthiopoulos, J. (2012) Modelling the impact of hen harrier management measures on a red grouse population in the UK. OIKOS. 121, 1061-1072.
  • Paxton, C.G.M., Hedley, S. and Bannister, J.L. (2012) Group IV Humpback whales: their status from aerial and land-based surveys off Western Australia, 2005. Journal of Cetacean Research and Management, Special Issue 3.
  • Reitan, T., Schweder, T. and Henderiks, J. (2012)Phenotypic evolution studied by layered stochastic differential equations. Annals of Applied Statistics 6 (4) 1531-1551.
  • Robinson, R. A., Baillie, S. R. and King, R. (2012) Population Processes in European Blackbirds Turdus merula: A State-space Approach. Journal of Ornithology 152 419-433.
  • Stott, I., Hodgson, D.J. and Townley, S.(2012) popdemo: an R package for population demography using projection matrix analysis, Methods in Ecol. & Evol 3, 797 – 802.
  • Stott, I., Hodgson, D.J. and Townley, S.(2012) Beyond sensitivity: nonlinear perturbation analysis of transient dynamics. Methods in Ecol. & Evol 3, 673 – 684.
  • Szmaragd, C., Green, L.E., Medley, G.F, Browne, W.J. (2012) Impact of Imperfect Test Sensitivity on Determining Risk Factors: the Case of Bovine Tuberculosis. PLoS ONE. 7(8) e43116.
  • Thomas, L. and Marques, T.A. (2012) Passive Acoustic Monitoring for Estimating Animal Density. Acoustics Today 8(3) 35-44.
  • Townley, S., Rebarber, R. and Tenhumberg, B.(2012) Feedback control systems analysis of density dependent population dynamics, Systems and Control Letters, 61, 309-315.
  • Turek, D. and Fletcher, D. (2012) Model-averaged Wald confidence intervals. Computational Statistics and Data Analysis 56 2809–2815.
  • Ver Hoef, J.M. (2012) Who invented the delta method? The American Statistician 66 124 – 127.
  • Viallefont, A., Besbeas, P., Morgan, B.J.T. and McCrea, R.S. (2012) Estimating survival and transition rates from aggergate sightings of animals. Journal of Ornithology. 152 (Suppl 2): S381–S391.
  • Wichelhaus, C., Langrock, R. (2012) Nonparametric inference for stochastic feedforward networks based on cross-spectral analysis of point processes. Electronic Journal of Statistics 6 1670-1714

2011

  • Birchenough, S., Parker, R.E., McManus, E. and Barry, J. (2011) Combining bioturbation and redox metrics: Potential tools for assessing seabed function. Ecological Indicators,12(1), 8-16.
  • Bolam, S.G., Barry, J., Mason, C., Bolam, T., Rumney, H., Law, R. and Thain, J.E. (2011) Impacts of maintenance dredged material disposal on macrobenthic structure and secondary productivity. Marine Pollution Bulletin, 62, 2230-2245.
  • Carvell, C., Osborne, J.L., Bourke, A.F.G., Freeman, S.N., Pywell, R.F. and Heard, M.S. (2011) Bumble bee species’ responses to a targeted conservation measure depend on landscape context and habitat quality. Ecological Applications, 21, 5, 1760-1771.
  • Cooper, K., Ware, S., Vanstaen, K. and Barry, J. (2011) Gravel Seeding – a suitable technique for restoration of the seabed following marine aggregate dredging? Estuarine and Coastal Shelf Science. 91 (1), 121-132.
  • Cubero-Pardo, P., Donovan, C. & Urbán-Ramírez, J. (2011) “A proposal to define vulnerability of cetacean areas to human development: variables and analysis procedures applied to the Gulf of California” Aquatic Conservation: Marine and Freshwater Ecosystems. 21, (5)
  • Dillingham, P.W. and Fletcher, D. (2011). Potential biological removal of albatrosses and petrels with minimal demographic information. Biological Conservation, 144 (6), 1885-1894.
  • Fletcher, D. (2011). Statistical ecology. In M. Lovric (Ed.), International Encyclopedia of Statistical Science (pp. 1401-1404). Berlin, Germany: Springer.
  • Fletcher, D. and Dillingham, P.W. (2011) Model-averaged confidence intervals for factorial experiments. Computational Statistics and Data Analysis 55, 3041–3048.
  • Fletcher, D. and Dixon, P. M. (2011) Modelling data from different sites, times or studies: weighted vs. unweighted regression. Methods in Ecology and Evolution 3,168–176.
  • Fletcher, D., Lebreton, J.-D., Marescot, L., Schaub, M., Gimenez, O., Dawson, S. and Slooten, E. (2011). Bias in estimation of adult survival and asymptotic population growth rate caused by undetected capture heterogeneity. Methods in Ecology and Evolution 3, 206–216.
  • Greenwood, N., Hydes, D., Mahaffey, C., Wither, A., Barry, J., Sivyer, D., Pearce, D., Hartman, S., Andres, O. and Lees, H. (2011) Spatial and temporal variability in nutrient concentrations in Liverpool Bay, a temperate latitude region of freshwater influence. Ocean Dynamics 61 2181-2199.
  • Clucas, R., Moller, H., Bragg, C., Fletcher, D., Lyver, P. and Newman, J. Rakiura (2012) Maori muttonbirding diaries: monitoring trends in titi (puffinus griseus) abundance in New Zealand. New Zealand Journal of Zoology 39: 155-177.
  • King, R. (2011) Statistical Ecology in Handbook of Markov chain Monte Carlo Eds. Brooks, Gelman, Jones and Meng. CRC Press. 419-447.
  • Küsel, E.T., Mellinger, D.K., Thomas, L., Marques, T.A., Moretti, D.J. and Ward, J. (2011) Cetacean population density from single fixed sensors using passive acoustics. Journal of the Acoustical Society of America 129, 3610-3622.
  • Lahoz-Monfort, J.J., Morgan, B.J.T., Harris, M.P., Wanless, S. and Harris, M.P. (2011) A capture-recapture model for exploring multi-species synchrony in survival. Methods in Ecology and Evolution, 2 (1), pp. 116-124.
  • Marques, T.A., Buckland, S.T., Borchers, D.L., Rexstad, E. and Thomas, L. (2011) Conventional distance sampling.(version 1). StatProb: The Encyclopedia Sponsored by Statistics and Probability Societies.
  • Marques, T.A., Buckland, S.T., Borchers, D.L., Rexstad, E. and Thomas, L. (2011) Distance sampling. in Lovric, M. (Ed), International Encyclopedia of Statistical Sciences. 398-400. Springer-Verlag, Berlin.
  • Marques, T.A., Thomas, L., Munger, L., Wiggins, S. and Hildebrand, J.A. (2011) Estimating North Pacific right whale (Eubalaena japonica) density using passive acoustic cue counting. Endangered Species Research 13, 163-172.
  • Marques, T. A., Thomas, L., and J. A. Royle. (2011) A hierarchical model for spatial capture-recapture data: comment. Ecology 92 526 – 528. DOI: 10.1890/10-1440.1
  • McCarthy, E., Moretti, D., Thomas, L., DiMarzio, N., Morrissey, R., Jarvis, S., Ward, J., Izzi, A. and Dilley A. (2011) Changes in spatial and temporal distribution and vocal behavior of Blainville’s beaked whales (Mesoplodon densirostris) during multi-ship exercises with mid-frequency sonar. Marine Mammal Science 27(3), E206-E226.
  • McCrea, R.S. and Morgan, B.J.T. (2011) Multi-site mark recapture model selection using score tests. Biometrics 67, 234-241.
  • Mellinger, D.K., Martin, S.W., Morrissey, R.P., Thomas, L. and Yosco, J.J.(2011) A method for detecting whistles, moans and other frequency contour sounds. Journal of the Acoustical Society of America 129, 4055-4061.
  • Ormond, E.L., Thomas, A.P.M., Pell, J.K., Freeman, S.N. and Roy, H.E. (2011) Avoidance of a generalist entemopathogenic
    fungus by the ladybird, Coccinella septempunctata. FEMS Microbiology Ecology 77, 2, 229-237.
  • Palmer, K.J., Ridout, M.S. and Morgan, B.J.T. ( 2011) Analysing curing of the [PSI+] prion by simulating prion kinetic models. J. Theoretical Biology 274(1) 1-11.
  • Rebarber, R. Tenhumberg, B. and Townley, S. (2011) Global asymptotic stability of density dependent projection models. Theo. Pop. Biol. 81, 81-87.
  • Reynolds, T.J., Harris, M.P., King, R., Swann, R.L., Jardine, D.C., Frederiksen, M. and Wanless, S. (2011) Among-colony Synchr ony in Seabird Survival Reflects Shared Wintering Areas. Ibis 153, 818-831.
  • Studeny, A., Buckland, S.T., Illian, J.B., Johnston, A. and Magurran, A.E. (2011) Goodness-of-fit measures of evenness: a new tool for exploring changes in community structure. Ecosphere 2 (2), Article 15. doi:10.1890/ES10-00074.1.
  • Smout, S., King, R. and Pomeroy, P. (2011) Estimating demographic parameters for capture-recapture data in the presence of multiple mark types. Environmental and Ecological Statistics 18 331-347.
  • Smout, S.C., King, R. and Pomeroy, P.P. (2011) Integrating Heterogeneity of Detection and Mark Loss to Estimate Survival and Transience in UK Colonies of Grey Seal. Journal of Applied Ecology 48, 364-372.
  • Stott, I., Townley, S. and Hodgson, D.J. (2011) A framework for transient dynamics of population projection matrix models. Ecol. Letters 14, 959-70.
  • Walker, C.G., Mackenzie, M.L., Donovan, C.R. and O’Sullivan, M.J. (2011) SALSA: A Spatially Adaptive Local Smoothing Algorithm. Journal of Statistical Computation and Simulation 81, 2, 179-191 (13).
  • Ward, J., Jarvis, S., Moretti, D., Morrissey, R., DiMarzio, N., Thomas, L. and Marques, T. (2011) Beaked whale (Mesoplodon densirostris) passive acoustic detection with increasing ambient noise. Journal of the Aocustical Society of America 129, 662-669.

2010

  • Bonner, S.J., Morgan, B.J.T. and King, R. (2010) Continuous covariates in mark-recapture-recovery analysis: A comparison of methods. Biometrics 66 1256-1265.
  • Barnes, C., Maxwell, D., Reuman, D. C. and Jennings, S. (2010) Global patterns in predator-prey size relationships reveal size-dependency of trophic transfer efficiency. Ecology 91(1): 222-232.
  • Barry, J., Boyd, S.E. and Fryer, R. (2010) Modelling the effects of marine aggregate extraction on benthic assemblages. Journal of the Marine Biological Association of the U.K. 90, 105-114.
  • Besbeas, P. (2010) Estimation. Encyclopedia of Research Design. Sage Publications (Ed Salkind, N.J.) 420-423.
  • Bird, S. M., Hay, G., Hutchinson, S. and King, R. (2010) Missing Targets on Drugs-related Deaths, and a Scottish Paradox. International Journal of Drug Policy 21, 155-159.
  • Bolam, S.G., Barry, J., Schratzberger, M., Whomersley, P. and Dearnaley, M. (2010) Macrofaunal recolonisation following the intertidal placement of fine-grained dredged material. Environmental Monitoring and Assessment 168: issue 1, p 499.
  • Borchers, D.L., Marques, T.A., Gunnlaugsson, T. and Jupp, P. (2010) Estimating distance sampling detection functions when distances are measured with errors. JABES 15: 346-361 DOI: 10.1007/s13253-010-0021-y Springerlink
  • Breckels, M.N., Boakes, D.E., Codling, E.A., Malin, G., Archer, S.D., Steinke, M. (2010) Modelling the concentration of exuded dimethylsulphoniopropionate (DMSP) in the boundary layer surrounding phytoplankton cells. Journal of Plankton Research 32: 253-257. (pdf).
  • Brewer, M.J., Beale, C.M., Baker, N.E. and Lennon, J.J. (2010). Modelling observer effort in spatio-temporal modelling of Tanzanian bird data. In “International Workshop on Spatio-Temporal Modelling (METMAV)”, 38-41. Unidixital, Santiago de Compostela, Spain.
  • Buckland, S.T., Studeny, A.C., Magurran, A.E. and Newson, S.E. (2010) Biodiversity monitoring: the relevance of detectability. In Biological Diversity: Frontiers in Measurement and Assessment (eds A.E. Magurran and B.J. McGill) 25-36. Oxford University Press, Oxford.
  • Cave, V. M., King, R. and Freeman, S. N. (2010) An Integrated Population Model from Constant Effort Bird-Ringing Data. Journal of Agricultural, Biological, and Environmental Statistics 15, 119-137.
  • Cave, V. M., King, R. and Freeman, S. N. (2010) An Integrated Population Model from Constant Effort Bird-Ringing Data. Journal of Agricultural, Biological, and Environmental Statistics 15, 119-137.
  • Childerhouse, S., Dawson, S., Fletcher, D., Slooten, E. and Chilvers, L. (2010) Growth and reproduction of female New Zealand sea lions. Journal of Mammalogy 91:165-176.
  • Childerhouse, S., Dawson, S., Slooten, E., Fletcher, D. and Wilkinson, I. (2010) Age distribution of lactating New Zealand sea lions: inter-annual and inter-site variation. Marine Mammal Science 26: 123-139.
  • Codling, E.A., Bearon, R.N., Thorn, G.J. (2010) Diffusion about the mean drift location in a biased random walk. Ecology 91: 3106-3113.
  • Coe, T.S., Söffker, M.K., Filby, A.L., Hodgson, D. and Tyler, C.R. (2010) Impacts of Early Life Exposure to Estrogen on Subsequent Breeding Behavior and Reproductive Success in Zebrafish. Environ Sci Technol 44(16) 6481-6487
  • Cole, D.J. and Morgan, B.J.T. (2010) Parameter redundancy with covariates. Biometrika 97, 1002-1005.
  • Cole, D.J. and Morgan, B.J.T. (2010) A note on determining parameter redundancy in age-dependent tag return models for estimating fishing mortality, natural mortality and selectivity. Journal of Agricultural, Biological, and Environmental Statistics, 15, 431–434.
  • Fieberg, J., Matthiopoulos, J., Hebblewhite, M., Frair, J. and Boyce, M. (2010) Autocorrelation and studies of habitat selection: problem, red herring, or opportunity? Philosophical Transactions of the Royal Society B, 365, 2233-2244.
  • Gramacy, R.B., Samworth, R.J. and King, R. (2010) Importance tempering. Statistics and Computing 20 1-7
  • Griffiths, R.A., Sewell, D. and McCrea, R.S. (2010) Dynamics of a declining amphibian metapopulation: survival, dispersal and the impact of climate. Biological Conservation 143 485-491
  • Harrison, A., Newey, S., Gilbert, L., Haydon, D. T., and Thirgood, S. (2010) Culling wildlife hosts to control disease: mountain hares, red grouse and louping ill virus Journal Of Applied Ecology 47, 4, 926-930
  • Hayes, N., Blackburn, E., Boyle, M., Russell, G., Frost, T., Morgan, B. and Gullick, W. (2010) Expression of Neureguolin 4 splice variants in normal human tissues and prostate cancer and their effects on cell motility. Endocrine-Related Cancer 18, 39-49.
  • Heffernan, J., Barry, J., Devlin, M. and Fryer, R. (2010) A simulation tool for designing nutrient monitoring programmes for eutrophication experiments. Environmetrics, 21 3-20.
  • Heide-Jørgensen, M.P., Laidre, K.L., Borchers, D.L., Stem, H. and Simon, M.J. (2010) The effect of sea ice loss on beluga whales (Delphinapterus leucas) in West Greenland. Polar Research 29: 198-208. DOI: 10.1111/j.1751-8369.2009.00142.x
  • Heide-Jørgensen, M.P., Laidre, K.L., Simon, M., Rasmussen, M., Burt, M.L. and Borchers, D.L. (2010) Abundance estimates of fin whales in West Greenland in 2007. Journal of Cetacean Research and Management, 11: 83-88.
  • Illian, J.B. and Hendrichsen, D.K., (2010) Gibbs point process models with fixed and random effects. Environmetrics 21, 341-353.
  • Inger, R., Harrison, X.A., Ruxton, G.D., Newton, J., Colhoun, K., Gudmundsson, G.A., McElwaine, G., Pickford, M., Hodgson, D., Bearhop, S., et al (2010) Carry-over effects reveal reproductive costs in a long-distance migrant. J Anim Ecol 79(5) 974-982
  • Kraak, S.B.M., Kelly, C.J., Codling, E.A., Rogan, E. 2010. On scientists’ discomfort in fisheries advisory science: the example of simulation-based fisheries Management Strategy Evaluations. Fish and Fisheries 11 119-132. (pdf).
  • Law, R.J., Barry, J., Bersuder, P., Barber, J., Deaville, R., Reid, R.J. and Jepson, P.D. (2010) Levels and trends of BDEs in blubber of harbour porpoises (Phocoena phocoena) from the UK, 1992 – 2008. Environmental Science and Technology 44 4447-4451.
  • Law, R.J., Bersuder, P., Barry, J., Deaville, R., Reid, R.J. and Jepson, P.D. (2010) Chlorobiphenyls in the blubber of harbour porpoises (Phoceona phoceona) from the UK: levels and trends 1991-2005. Marine Pollution Bulletin 60 470-473.
  • Lembo, T., Hampson, K., Kaare, M. T., Ernest, E., Knobel, D., Kazwala, R. R., Haydon, D. T., and Cleaveland, S. (2010) The feasibility of canine rabies elimination in Africa: Dispelling doubts with data PLOS Neglected Tropical Diseases 4, 2, e626- online version .
  • Lonergan, M., Hall, A.J., Thompson, H., Thompson, P.M., Pomeroy, P.P. and Harwood J.; A comparison of the 1988 and 2002 phocine distemper epizootics in British harbour seal (Phoca vitulina) populations; Diseases of Aquatic Organisms; 88 183-188. Full text via DOI
  • McCrea, R.S., Morgan, B.J.T., Gimenez, O., Besbeas, P. Lebreton, J.-D. and Bregnballe, T. (2010) Multi-site integrated population modelling. JABES 15 539-561.
  • McKechnie, S., Fletcher, D., Newman, J., Scott, D., Bragg, C. and Moller, H. (2010) Modelling the intensity of harvesting of Sooty Shearwater chicks by Rakiura Maori in New Zealand. Journal of Wildlife Management 74: 828-842.
  • Magurran, A.E., Baillie, S.R., Buckland, S.T., Dick, J. McP., Elston, D.A., Scott, E.M., Smith, R.I., Somerfield, P.J. and Watt, A. (2010) Long-term data sets in biodiversity research and monitoring: assessing change in ecological communities through time. Trends in Ecology and Evolution 25(10) 574-582.
  • Marion, G., Butler, A., Catterall, S., Cook, A., Doherty, R., Kühn, I., Reineking, B., Schweiger, O. and Hulme, P. (2010). Statistical aspects of biodiversity risk assessment. Atlas of Biodiversity Risk Eds. Josef Settele et al.. Pensoft, Sofia & Moscow.
    58-61.
  • Marion, G., Grabaum, R., Bierman, S., Butler, A., Grescho, V., Spangenberg, J., Kühn, I., Hammen, V., Hickler, T., Hulme, P., Douguet, J.M., Peterson, K., Potts, S., Reginster, I., Maxim, L., Omann, I. and Settele, J. (2010) Biodiversity risk assessment for Europe – putting it all together. Atlas of Biodiversity Risk Eds. Josef Settele et al. Pensoft, Sofia & Moscow. 252-253.
  • Marques, T.A., Buckland, S.T., Borchers, D.L., Rexstad, E. and Thomas, L. (2010) Distance sampling. Springer’s International Lexicon of Statistical Sciences
    (ed. M. Lovric) 398 – 400.
  • Marques, T.A., Buckland, S.T., Borchers, D.L., Tosh, D. and McDonald, R.A. (2010) Point transect sampling along linear features. Biometrics 66 1247 – 1255. DOI: 10.1111/j.1541-0420.2009.01381.x
  • Murray, J.K., Browne W.J., Roberts,M.A., Whitmarsh, A. and Gruffydd-Jones, T.J. (2010) Owned cats and dogs in the UK: who owns them and how many are there in England and Wales? Vet Record. 166: 163-168
  • Newton, E., Bullock, J.M., Hodgson, D. (2010). Temporal consistency in herbivore responses to glucosinolate polymorphism in populations of wild cabbage (Brassica oleracea). Oecologia 164(3) 689-699.
  • Pomeroy, P.P., Smout, S.C., Moss, S., Twiss, S. and King, R. (2010) Low and Delayed Recruitment at Grey Seal Breeding Colonies in the UK. Journal of Northwest Atlantic Fishery Science 42, 125-133.
  • Rands, S.A. (2010) Self-improvement for team-players: the effects of individual effort on aggregated group information. PLoS ONE 5: article e11705
  • Rands, S.A. (2010) Group-movement ‘initiation’ and state-dependent decision-making. Behavioural Processes 84 668-670
  • Rands, S.A. and Whitney, H.M. (2010) Effects of pollinator density-dependent preferences on field margin pollination in the midst of agricultural monocultures: a modelling approach. Ecological Modelling 221 1310-1316
  • Samaranayaka, A. and Fletcher, D. (2010) Modelling environmental stochasticity in adult survival for a long-lived species. Ecological Modelling 221: 423-427.
  • Smout, S.C., Asseburg, C., Matthiopoulos, J., Fernández, C., Redpath, S., Thirgood, S., and Harwood, J. (2010) The Functional Response of a Generalist Predator PLoS ONE 5(5): e10761. doi:10.1371/journal.pone.0010761
  • Stott, I., Franco, M., Carslake, D., Townley, S. and Hodgson, D. (2010) Boom or bust? a comparative analysis of transient population dynamics in plants. J Ecol 98(2) 302-311
  • Stott, I., Townley, S., Carslake, D. and Hodgson, D.J.(2010) On reducibility and ergodicity of population projection matrix models. Methods in Ecol. & Evol 1. 242-252.

2009

  • Aars, J., Marques, T.A., Buckland, S.T., Anderson, M., Belikov, S., Boltunov, A. and Wiig, Ø. (2009) Estimating the Barents Sea polar bear subpopulation size. Marine Mammal Science 25 35-52
  • Baillie, S.R., Brooks, S.P., King, R. and Thomas, L. (2009) Using a state-space model of the UK song thrush Turdus Philomelos population to diagnose the causes of a population decline. Modeling Demographic Processes in Marked Populations. Springer Series: Environmental and Ecological Statistics 3 543-564 (Eds. Thomson, D.L., Cooch, E.G. and Conroy, M.J.)
  • Besbeas, P., Borysiewicz, R. and Morgan, B.J.T. (2009) Completing the ecological jigsaw. Modelling Demographic Processes in Marked Populations. Springer Series: Environmental and Ecological Statistics 3 513-539 (Eds. Thomson, D.L., Cooch, E.G. and Conroy, M.J.)
  • Borchers, D.L., Pike, D., Gunnlaugsson, Th. and Vikingson, G. (2009) Minke whale abundance estimation from the NASS 1987 and 2001 cue counting surveys taking account of distance estimation errors. NAMMCO Scientific Publications, Volume 7: North Atlantic Sightings Surveys (1987-2001) 95-110
  • Borysiewicz, R.S., Morgan, B.J.T., Gimenez, O., Henaux, V., Begnballe, T. and Lebreton, J.-D. (2009) An integrated analysis of multisite recruitment, mark-recapture-recovery and multisite census data. Modelling Demographic Processes in Marked Populations. Springer Series: Environmental and Ecological Statistics 3 579-591 (Eds. Thomson, D.L., Cooch, E.G. and Conroy, M.J.)
  • Bragg, C., McKechnie, S., Newman, J., Fletcher, D., Moller, H., and Scott, D. (2009) Variation in abundance and harvest of sooty shearwaters by Rakiura Maori on Putauhinu Island. New Zealand Journal of Zoology 36: 275-289.
  • Buckland, S.T. 2009. Quantifying biodiversity. Significance 6, 105-107.
  • Buckland, S.T., Russell, R.E., Dickson, B.G., Saab, V.A., Gorman, D.N. and Block, W.M. (2009) Analysing designed experiments in distance sampling. JABES 14 432-442
  • Borchers, D.L., Pike, D., Gunnlaugsson, Th. and Vikingson, G. (2009) Minke whale abundance estimation from the NASS 1987 and 2001 cue counting surveys taking account of distance estimation errors. NAMMCO Scientific Publications, Volume 7: North Atlantic Sightings Surveys (1987-2001) 95-110
  • Byrne, L.J., Cole, D.J., Cox, B.S., Ridout, M.S., Morgan, B.J.T. and Tuite, M.F. (2009) The Number and Transmission of [PSI+] Prion Seeds (Propagons) in the Yeast Saccharomyces Cerevisiae. PLoS ONE eISSN-1932-6203
  • Cañadas, A., Donovan, G., Desportes, G. and Borchers, D.L. (2009) A short review of the distribution of short-beaked common dolphins (Delphinus delphis) in the central and eastern North Atlantic with an abundance estimate for part of this area. NAMMCO Scientific Publications, Volume 7: North Atlantic Sightings Surveys (1987-2001) 201-220
  • Cave, V.M., Freeman, S.N., Brooks, S.P., King, R. and Balmer, D.E. (2009) On adjusting for missed visits in the indexing of abundance from `constant effort’ ringing. Modeling Demographic Processes in Marked Populations. Springer Series: Environmental and Ecological Statistics 3 951-966 (Eds. Thomson, D.L., Cooch, E.G. and Conroy, M.J.)
  • Charleton, K., Bragg, C., Knight, B., Fletcher, D., Moller, H., Newman, J. and Scott, D. (2009) Spatial variation in burrow entrance density of the sooty shearwater (Puffinus griseus). Notornis 56: 1-10.
  • Efford, M.G., Borchers, D.L. and Byrom, A.E. (2009) Density estimation by spatially explicit capture-recapture: likelihood-based methods. Modeling Demographic Processes in Marked Populations. Springer Series: Environmental and Ecological Statistics 3 255-269 (Eds. Thomson, D.L., Cooch, E.G. and Conroy, M.J.)
  • Efford, M.G., Dawson, D. and Borchers, D.L. (2009) Population density estimated from locations of individuals on a passive detector array. Ecology 90 2676-2682
  • Fletcher, D. and Efford, M. (2009) Effect of senescence on estimation of survival probability when age is unknown. In Modeling Demographic Processes in Marked Populations. Series: Environmental and Ecological Statistics, Volume 3. Edited by David Thomson, Evan Cooch and Mike Conroy. Springer, New York
  • Gimenez, O., Bonner, S., King, R., Parker, R.A., Brooks, S.P., Jamieson, L.E., Grosbois, V., Morgan, B.J.T. and Thomas, L. (2009) WinBUGS for population ecologists: Bayesian modelling using Markov chain Monte Carlo (MCMC) methods. Modelling Demographic Processes in Marked Populations. Springer Series: Environmental and Ecological Statistics 3 885-918 (Eds. Thomson, D.L., Cooch, E.G. and Conroy, M.J.)
  • Gimenez, O., Morgan, B.J.T. and Brooks, S.P. (2009) Weak identifiability in models for mark-recapture-recovery data. Modelling Demographic Processes in Marked Populations. Springer Series: Environmental and Ecological Statistics 3 1055-1068 (Eds. Thomson, D.L., Cooch, E.G. and Conroy, M.J.)
  • Grosbois, V., Harris, M.P., Anker-Nilssen, T., McCleery, R.H., Shaw, D.N., Morgan, B.J.T. and Gimenez, O. (2009) Modeling survival at multi-population scales using mark-recapturedata. Ecology 90(10) 2922-2932
  • Illian, J.B., Prosser, J.I., Baker, K.L. and Rangel-Castro, J.I. (2009) Functional principal component data analysis: a new method for analysing microbial community fingerprints. Journal of Microbiological Methods 79 89-95
  • Illian, J.B., Waagepetersen, R.P. and Møller, J. (2009) Hierarchical spatial point process analysis for a plant community with high biodiversity. Journal of Environmental and Ecological Statistics 16 389-405
  • King, R., Bird, S.M., Hay, G. and Hutchinson, S. (2009) Estimating current injectors in Scotland and their drug-related death rate by sex, region and age-group via Bayesian capture-recapture methods. Statistical Methods in Medical Research 18 341-359
  • Law, R., Illian, J.B., Burslem, D.F.R.P., Gratzer, G., Gunatilleke, C.V.S. and Gunatilleke, I.A.U.N. (2009) Ecological information from spatial patterns of plants: insights from point process theory. Journal of Ecology 97 616-628
  • Marques, T.A. (2009) Distance sampling: estimating animal density. Significance 6 136-137
  • Marques, T.A., Thomas, L., Ward, J., DiMarzio, N. and Tyack, P.L. (2009) Estimating cetacean population density using fixed passive acoustic sensors: an example with Blainville’s beaked whales. The Journal of the Acoustical Society of America 125 1982-1994
  • McClintock, B.T. and White, G.C. (2009) A less field-intensive robust design for estimating demographic parameters with mark-resight data. Ecology 90 313-320
  • McClintock, B.T., White, G.C. Antolin, M.F. and Tripp, D.W. (2009) Estimating abundance using mark-resight when sampling is with replacement or the number of marked individuals is unknown. Biometrics 65 237-246
  • McClintock, B.T., White, G.C., Burnham, K.P. and Pryde, M.A. (2009) A generalized mixed effects model of abundance for mark-resight data when sampling is without replacement. Modeling Demographic Processes in Marked Populations. Springer Series: Environmental and Ecological Statistics 3 271-289 (Eds. Thomson, D.L., Cooch, E.G. and Conroy, M.J.)
  • McKechnie, S., Bragg, C., Newman, J., Scott, D., Fletcher, D., and Moller, H. (2009) Assessing the monitoring of sooty shearwater (Puffinus griseus) abundance in southern New Zealand. Wildlife Research 36: 541-552.
  • Merl, D., Johnson, L.R., Gramacy, R.B. and Mangel, M.S. (2009) A statistical framework for the adaptive management of epidemiological interventions. PLoS ONE 4(6) e5087
  • Moller, H., Lyver, P., Bragg, C., Newman, J., Clucas, R., Fletcher, D., Kitson, J., McKechnie, S., Scott, D. and Rakiura Titi Islands Administering Body. (2009) Guidelines for cross-cultural Participatory Action Research partnerships: a case study of a customary seabird harvest in New Zealand. New Zealand Journal of Zoology 36: 211-241.
  • Morgan, B.J.T. and Ridout, M.S. (2009) Estimating N: a robust approach to recapture heterogeneity. Modelling Demographic Processes in Marked Populations. Springer Series: Environmental and Ecological Statistics 3 1069-1080 (Eds. Thomson, D.L., Cooch, E.G. and Conroy, M.J.)
  • Moyes, K., Morgan, B.J.T., Morris, A., Morris, S.J., Clutton-Brock, T.H. and Coulson, T. (2009) Exploring individual quality in a wild population of red deer. J. Anim. Ecol. 78 406-413
  • New, L.F., Matthiopoulos, J., Redpath, S. and Buckland, S.T. (2009) Fitting models of multiple hypotheses to partial population data: investigating the causes of cycles in red grouse. American Naturalist 174 399-412
  • Newman, J., Fletcher, D., Moller, H., Bragg, C., Scott, D. and McKechnie, S. (2009) Estimates of productivity and detection probabilities of breeding attempts in the sooty shearwater (Puffinus griseus), a burrow-nesting petrel. Wildlife Research 36: 159-168.
  • Newman, J., Scott, D., Bragg, C., McKechnie, S., Moller, H. and Fletcher, D. (2009) Estimating regional population size and annual harvest intensity of the sooty shearwater in New Zealand. New Zealand Journal of Zoology 36: 307-323.
  • Newman, K.B., Fernández, C., Thomas, L. and Buckland, S.T. (2009) Monte Carlo inference for state-space models of wild animal populations. Biometrics 65 572-583
  • Nichols, J.D., Thomas, L. and Conn, P.B. (2009) Inferences about landbird abundance from count data: recent advances and future directions. Modeling Demographic Processes in Marked Populations. Springer Series: Environmental and Ecological Statistics 3 203-238 (Eds. Thomson, D.L., Cooch, E.G. and Conroy, M.J.)
  • Paxton, C.G.M. (2009) The plural of ‘anecdote’ can be ‘data’: statistical analysis of viewing distances in reports of unidentified giant marine animals 1758 – 2000. Journal of Zoology 279 381-387
  • Paxton, C.G.M., Burt, M.L., Hedley, S., Víkingsson, G.A., Gunnlaugsson, Th. and Desportes, G. (2009) Density surface fitting to estimate the abundance of humpback whales based on the NASS-95 and NASS-2001 aerial and shipboard surveys. NAMMCO Scientific Publications 7 143-160
  • Paxton, C.G.M., Winfield, I.J., Fletcher, J.M., George, D. G. and Hewitt, D.P. (2009) Investigation of first year biotic and abiotic influences on the recruitment of pike (Esox lucius) in Windermere, U.K. using Generalized Additive Models. Journal of Fish Biology 74 2279-2298
  • Pike, D.G., Paxton, C.G.M., Gunnlaugsson, Th. and Víkingsson, G.A. (2009) Trends in the abundance of cetaceans from aerial surveys in Icelandic coastal waters, 1986-2001. NAMMCO Scientific Publications 7 117-142
  • Ridout, M.S. and Linkie, M. (2009) Estimating overlap of daily activity patterns from camera trap data. JABES 14 322-337
  • Sharples, R.J., Mackenzie, M.L. and Hammond, P.S. (2009) Estimating seasonal abundance of a central place forager using counts and telemetry data. Marine Ecology Progress Series 378 289-298
  • Scott, D., Moller, H., Fletcher, D., Newman, J., Aryal, J., Bragg, C. and Charleton, K. (2009) Predictive habitat modelling to estimate petrel breeding colony sizes: Sooty shearwater (Puffinus griseus) and mottled petrels (Pterodroma inexpectata) on Whenua Hou Island. New Zealand Journal of Zoology 36: 291-306.
  • Thomas, L. 2009. Grey seals red in tooth and claw: how Darwin helps model their population. Significance 6 (3), 108-112.
  • Tavecchia, G., Besbeas, P.T., Coulson, T., Morgan, B.J.T. and Clutton-Brock, T.H. (2009) Estimating population size and hidden demographic parameters with state-space modelling. American Naturalist 173 722-733
  • Thomson, D.L., Conroy, M.J., Anderson, D.R., Burnham, K.P., Cooch, E.G., Francis, C.M., Lebreton, J.-D., Lindberg, M.S., Morgan, B.J.T., Otis, D.L. and White, G.C. (2009) Standardising terminology and notation for the analysis of demographic processes in marked populations. Modelling Demographic Processes in Marked Populations. Springer Series: Environmental and Ecological Statistics 3 1099-1106 (Eds. Thomson, D.L., Cooch, E.G. and Conroy, M.J.)
  • Viana, M., Pierce, G.J., Illian, J.B., MacLeod, C.D., Bailey, N., Wang, J. and Hastie, L.C. (2009) Seasonal movements of veined squid Loligo forbesi in Scottish (UK) waters. Aquatic Living Resources 22 (3) 291-305.
  • Williams, R. and Thomas, L. (2009) Cost-effective abundance estimation of rare marine animals: small-boat surveys for killer whales in British Columbia Canada. Biological Conservation 142 1542-1547.

2008

  • Baillie, S.R., Brooks, S.P., King, R. and Thomas, L. (2008) Using a state-space model of the UK Song Thrush Turdus philomelos population to diagnose the causes of a population decline. Thomson, D.L., E.G. Cooch and M.J. Conroy (Eds.) Modeling Demographic Processes in Marked Populations. Environmental and Ecological Statistics Vol 3, 543-564. Springer. ISBN: 978-0-387-78150-1.
  • Besbeas, P. and Morgan, B.J.T. (2008) Improved estimation of the stable laws. Statistics and Computing 18 (2) 219-231
  • Bernal, M., Ibaibarriaga, L., Lago de Lanzos, A., Lonergan, M.E., Hernandez, C. Franco, C. Rasines, I., Valdes, L. and Borchers, D.L. (2008) Using multinomial models to analyse data from sardine incubation experiments; a comparison with traditional techniques. Ices Journal of Marine Science 65 51-59
  • Borchers, D.L. and Efford, M. (2008) Spatially explicit maximum likelihood methods for capture-recapture studies. Biometrics 64 377-385
  • Brooks, S.P., Freeman, S.N., Greenwood, J.J.D., King, R. and Mazzetta, C. (2008) Quantifying conservation concern – Bayesian statistics and the red data lists. Biological Conservation 141 1436-1441
  • Buckland, S.T., Marsden, S.J. and Green, R.E (2008) Estimating bird abundance: making methods work. Bird Conservation International 18 S91-S108
  • Burridge, C., Craw, D., Fletcher, D. and Waters, J. (2008) Geological dates and molecular rates: fish DNA sheds light on time-dependency. Molecular Biology and Evolution 25: 624-633.
  • Catchpole, E.A., Morgan, B.J.T. and Tavecchia, G.J. (2008) A new method for analysing discrete life history data with missing covariate values. Roy. Statist. Soc. B 70 445-460
  • Clucas, R., Fletcher, D. and Moller, H. (2008) Estimates of adult survival rate for three sooty shearwater (Puffinus griseus) colonies in New Zealand. Emu – Austral Ornithology 108: 237-250.
  • Conroy, M., Barker, R., Dillingham, P., Fletcher, D., Gormley, A. and Westbrooke, I. (2008) Application of decision theory to conservation management: recovery of Hector’s dolphin. Wildlife Research 35: 93-102.
  • Dillingham, P. and Fletcher, D. (2008) Estimating the ability of birds to sustain additional human-caused mortalities using a simple decision rule and allometric relationships. Biological Conservation 141: 1783-1792.
  • Fewster, R.M., Southwell, C., Borchers, D.L., Buckland, S.T. and Pople, A.R. (2008) The influence of animal mobility on the assumption of uniform distances in aerial line transect surveys. Wildlife Research 35 275-288
  • Fletcher, D. (2008) Confidence intervals for the mean of the delta-lognormal distribution. Environmental and Ecological Statistics 15: 175-189.
  • Freeman, S.N. and Newson, S.E. (2008) On a log-linear approach to detecting ecological interactions in monitored populations. Ibis 150(2) 250-258
  • Giminez, O., Bonner, S., King, R., Parker, R.A., Brooks, S., Jamieson, L.E., Grosbois, V., Morgan, B.J.T. and Thomas, L. (2008) WinBUGS for population ecologists: Bayesian modeling using Markov Chain Monte Carlo methods. Thomson, D.L., E.G. Cooch and M.J. Conroy (Eds.) Modeling Demographic Processes in Marked Populations. Environmental and Ecological Statistics Vol 3, 885-918. Springer. ISBN: 978-0-387-78150-1.
  • Harris, C.M., Calladine, J., Wernham, C.W. and Park, K.J. (2008) Impacts of piscivorous birds on salmonid populations and game fisheries in Scotland: a review. Wildlife Biology 14(4) 395-411
  • Heide-Jørgensen, M.P., Borchers, D.L., Witting, L., Simon, M.J., Laidre, K.L., Rosing-Asvid, A. and Pike, D.G. (2008) Estimates of large whale abundance in West Greenland waters from an aerial survey in 2005. JCRM 10 119-129
  • Katara, I., Illian, J.B., Pierce, G.J., Scott, B. and Wang, J. (2008) Atmospheric forcing on chlorophyll concentration in the Mediterranean. Hydrobiologia 612(1) 33-48
  • King, R. and Brooks, S.P. (2008) On the Bayesian estimation of a closed population size in the presence of heterogeneity and model uncertainty. Biometrics 64 816-824
  • King, R., Brooks, S.P. and Coulson, T. (2008) Analysing complex capture-recapture data: incorporating time-varying covariate information. Biometrics 64 1187-1195
  • King, R., Brooks, S.P., Mazzetta, C., Freeman, S.N. and Morgan, B.J.T. (2008) Identifying and diagnosing population declines: a Bayesian assessment of lapwings in the UK. Applied Statistics 57 (5) 609-632
  • Morgan, B.J.T. and Ridout, M.S. (2008) A new mixture model for capture heterogeneity. Applied Statistics 57 (4) 433-446.
  • Nichols, J.D., Thomas, L. and Conn, P.B. (2008) Inferences about landbird abundance from count data: recent advances and future directions. Thomson, D.L., E.G. Cooch and M.J. Conroy (Eds.) Modeling Demographic Processes in Marked Populations. Environmental and Ecological Statistics Vol 3, 203-238 Springer. ISBN: 978-0-387-78150-1.
  • Palmer, K.J., Ridout, M.S. and Morgan, B.J.T. (2008) Modelling cell generation times by using the tempered stable distribution. Journal of the Royal Statistical Society: Series C (Applied Statistics) 57(4) 379-397
  • Patterson, T.A., Thomas, L.J., Wilcox, C., Ovaskainen, O. and Matthiopoulos, J. (2008) State-space models of individual animal movement. Trends in Ecology and Evolution 23(2) 87-94
  • Scott, D., Scofield, P., Hunter, C. and Fletcher, D. (2008) Decline of sooty shearwaters, puffinus griseus, on The Snares, New Zealand. Papers and Proceedings of the Royal Society of Tasmania 142: 185-196.
  • Southwell, C., Paxton, C.G.M. and Borchers, D.L. (2008) Detectability of penguins in aerial surveys over the pack-ice off Antarctica. Wildlife Research 35 349-357
  • Southwell, C., Paxton, C.G.M., Borchers, D.L., Boveng, P. and de la Mare, W. (2008) Taking account of dependent species in management of the Southern Ocean krill fishery: estimating crabeater seal abundance off east Antarctica. Journal of Applied Ecology 45 622-631
  • Southwell, C., Paxton, C.G.M., Borchers, D.L., Boveng, P., Rogers, T., de la Mare, W.K. (2008) Uncommon or cryptic? Challenges in estimating leopard seal abundance by conventional but state-or-the-art methods. Deep-Sea Research 55 519-531
  • Waugh, S., MacKenzie, D. and Fletcher, D. (2008) Seabird bycatch in New Zealand trawl and longline fisheries, 1998-2004. Papers and Proceedings of the Royal Society of Tasmania 142: 45-66.

2007

  • Buckland, S.T., Borchers, D.L., Johnston, A., Henrys, P.A. and Marques, T.A. (2007) Line transect methods for plant surveys. Biometrics 63 989-998
  • Buckland, S.T., Newman, K.B., Fernández, C., Thomas, L. and Harwood, J. (2007) Embedding population dynamics models in inference. Statistical Science 22 44-58
  • Byrne, L.J., Cox, B.S., Cole, D.J., Ridout, M.S., Morgan, B.J.T. and Tuite, M.F. (2007) Cell division is essential for elimination of the yeast [PSI+] prion by guanidine hydrochloride. Proceedings of the National Academy of Sciences of the United States of America 104(28) 11688-11693
  • Cole, D.J., Ridout, M.S., Morgan, B.J.T., Byrne, L.J. and Tuite, M.F. (2007) Approximations for expected generation number. Biometrics 63(4) 1023-1030
  • DuFresne, S., Fletcher, D. and Dawson, S. (2006) The effect of line transect placement in a coastal distance sampling survey. Journal of Cetacean Research and Management 8: 79-85.
  • Fletcher, D. and Faddy,M. (2007) Confidence intervals for the expected abundance of rare species. Journal of Agricultural, Biological and Environmental Statistics 12: 315-324.
  • Freeman, S.N., Noble, D.G., Newson, S.E. and Baillie, S.R. (2007) Modelling population changes using data from different surveys: the Common Birds Census and the Breeding Bird Survey. Bird Study 54(1) 61-72
  • Freeman, S.N., Robinson, R.A., Clark, J.A., Griffin, B.M. and Adams, S.Y. (2007) Changing demography and population decline in the Common Starling Sturnus vulgaris: A multisite approach to Integrated Population Monitoring. Ibis 149(3) 587-596
  • Gauthier, G., Besbeas, P., Lebreton, J.-D. and Morgan, B.J.T. (2007) Population growth in Greater Snow Geese: a new modelling approach. Ecology 88 1420-1429
  • Hayes, N.V.L., Blackburn, E., Smart, L.V., Boyle, M.M., Russell, G.A., Frost, T.M., Morgan, B.J.T., Baines, A.J. and Gullick, W.J. (2007) Identification and characterization of novel spliced variants of neuregulin 4 in prostate cancer. Clinical Cancer Research 13(11) 3147-3155
  • Heide-Jorgensen, M.P., Laidre, K., Borchers, D.L., Samarra, F. and Stern, H. (2007) Increasing abundance of bowhead whales in west Greenland. Biology Letters 3 277-280
  • Ibaibarriaga, L., Bernal, M., Motos, L., Uriarte, A., Lonergan, M.E., Borchers, D.L. and Wood, S.N. (2007) Estimation of development properties of stage-classified biological processes using multinomial models: a case study of the Bay of Biscay anchovy (Engraulis encrasicolis, L.) egg development. Canadian Journal of Fisheries and Aquatic Sciences 64 539-553
  • Illian, J.B. and Burslem, D.F.R.P. (2007) Contributions of spatial point process modelling to biodiversity theory. Journal de la Société Franςaise de Statistique 148 9-29
  • Jamieson, I., Tracy, L., Fletcher, D. and Armstrong, D. (2007) Moderate inbreeding depression in a reintroduced population of North Island robins. Animal Conservation 10: 95-102.
  • McKechnie, S., Fletcher, D., Moller, H., Scott, D., Newman, J., and Bragg, C. (2007) Estimating and correcting for bias in population assessments of sooty shearwaters. Journal of Wildlife Management 71: 1325-1335.
  • Magle, S.B., McClintock, B.T., Tripp, D.W., White, G.C., Antolin, M.F. and Crooks, K.R. (2007) Mark-resight methodology for estimating population densities for prairie dogs. Journal of Wildlife Management 71 2067-2073
  • Marques, T.A., Thomas, L., Fancy, S.G. and Buckland, S.T. (2007) Improving estimates of bird density using multiple covariate distance sampling. The Auk 124 1229-1243
  • Mazzetta, C., Brooks, S.P. and Freeman, S.N. (2007) On smoothing trends in population index modelling. Biometrics 63(4) 1007-1014
  • McClintock, B.T. and White, G.C. (2007) Bighorn sheep abundance following a suspected pneumonia epidemic in Rocky Mountain National Park. Journal of Wildlife Management 71 183-189
  • Miles, W., Freeman, S.N., Harrison, N.M. and Balmer, D.E. (2007) Measuring passerine productivity using constant effort sites: the effect of missed visits. Ringing & Migration 23(4) 231-237
  • Morgan, B.J.T, Palmer, K.J. and Ridout, M.S. (2007) Negative score test statistic. The American Statistician 61 (4) 285-288
  • Morgan, B.J.T., Revell, D.J. and Freeman, S.N. (2007) Simplified likelihoods for site occupancy models. Biometrics 63 618-621
  • Robinson, R.A., Freeman, S.N., Balmer, D.E. and Grantham, M.J. (2007) Cetti’s Warbler Cettia cetti: analysis of an expanding population. Bird Study 54(2) 230-235
  • Southwell, C., Borchers, D.L., Paxton, C.G.M., Burt, M.L. and de la Mare, W. (2007) Estimation of detection probability in aerial surveys of Antarctic pack-ice seals. JABES 12 41-54
  • Stephenson, C.M., Kohn, D., Park, K.J., Edwards, C., Atkinson, R. and Travis, J.M.J (2007) Testing mechanistic models of seed dispersal for the invasive Rhododendron ponticum (L.). Perspectives in Plant Ecology, Evolution and Systematics 9(1) 15-28
  • Stephenson, C.M., Matthiopoulos, J. and Harwood, J. (2007) Influence of the physical environment and conspecific aggression on the spatial arrangement of breeding grey seals. Ecological Informatics 2 308-317

2006

  • Besbeas, P. and Freeman, S.N. (2006) Methods for joint inference from panel survey and demographic data.  Ecology 87(5) 1138-1145
  • Borchers, D.L., Laake, J.L., Southwell, C. and Paxton, C.G.M. (2006) Accommodating unmodelled heterogeneity in double-observer distance sampling surveys. Biometrics 62 372-378
  • Buckland, S.T. (2006) Point transect surveys for songbirds: robust methodologies. The Auk123 345-357
  • Buckland, S.T., Summers, R.W., Borchers, D.L. and Thomas, L. (2006) Point transect sampling with traps or lures. J. App. Ecol. 43 377-384
  • Gimenez, O., Barbraud, C., Crainiceanu, C., Jenouvrier, S. and Morgan, B.J.T. (2006) Semiparametric regression in capture-recapture modelling. Biometrics 62 691-698
  • Hammershoj, M., Travis, J.M.J. and Stephenson, C.M. (2006) Incorporating evolutionary processes into a spatially-explicit model: exploring the consequences of mink-farm closures in Denmark. Ecography 29 465-476
  • Harrison, P.J., Buckland, S.T., Thomas, L., Harris, R., Pomeroy, P.P. and Harwood, J. (2006) Incorporating movement into models of grey seal population dynamics. J. Anim. Ecol. 75634-645
  • Johnson, L.R. and Mangel, M. (2006) Life histories and the evolution of aging in bacteria and other single-celled organisms. Mechanisms of Aging and Development 127(10) 786-793
  • King, R., Brooks, S.P., Morgan, B.J.T. and Coulson, T. (2006) Factors influencing Soay sheep survival: a Bayesian analysis. Biometrics 62 211-220
  • Marques, T.A., Andersen, M., Christensen-Dalsgaard, S., Belikov, S., Boltunov, A., Wiig, Ø., Buckland, S.T. and Aars, J. (2006) Comparing distance estimation methods in a helicopter line transect survey. Wildlife Society Bulletin 34 759-763
  • McClintock, B.T., White, G.C. and Burnham, K.P. (2006) A robust design mark-resight abundance estimator allowing heterogeneity in resighting probabilities. JABES 11 231-248
  • Moyes, K., Coulson, T., Morgan, B.J.T., Clutton-Brock, T.H., Donald, A. and Morris, S.J. (2006) Cumulative costs of reproduction in female red deer. Okios 115 241-252
  • Newman, K.B., Buckland, S.T., Lindley, S.T., Thomas, L. and Fernández, C. (2006) Hidden process models for animal population dynamics. Ecological Applications 16 74-86
  • Ridout, M.S., Cole, D.J., Morgan, B.J.T., Byrne, L.J. and Tuite, M.F. (2006) New approximations to the Malthusian parameter. Biometrics 62(4) 1216-1223
  • Schneider, M., Law, R. and Illian, J.B. (2006) Quantification of neighbourhood-dependent plant growth by Bayesian hierarchical modelling. Journal of Ecology 94 310-321
  • Stephenson, C.M., MacKenzie, M.L., Edwards, C. and Travis, J.M.J. (2006) Modelling establishment probabilities of an exotic plant, Rhododendron ponticum, invading a heterogeneous, woodland landscape using logistic regression with spatial autocorrelation. Ecological Modelling 193(3-4) 747-758
  • Tocher, M., Fletcher, D. and Bishop, P. (2006) A modelling approach to determine a translocation scenario for the endangered New Zealand frog Leiopelma hamiltoni. Herpetological Journal 16: 97-106
  • Wanless, S., Frederiksen, M., Harris, M.P. and Freeman, S.N. (2006) Survival of Northern Gannets Morus bassanus in Britain and Ireland, 1959-2002. Bird Study 53(1) 86-91
  • Young, I.M., Illian, J.B., Harris, J.A. and Ritz, K. (2006) Comment on Zhao et al.(2005) “Does ergosterol concentration provide a reliable estimate of soil fungal biomass?”. Soil Biology and Biochemistry 38 1500-1501