Journal papers and Formal publications

Adam, M. S., and G. P. Kirkwood. 2001. Estimating tag-shedding rates for skipjack tuna, Katsuwonus pelamis , off the Maldives. Fish. Bull. 99: 193-196.

Adam, M. S., and J. R. Sibert. 2002. Population dynamics and movements of skipjack tuna (Katsuwonus pelamis) in the Maldivian fishery: analysis of tagging data from an advection-diffusion-reaction model. Aquat. Living Res. 15: 13-23.

Adam, M. S., J. R. Sibert, D. Itano, and K. Holland. 2003. Dynamics of bigeye (Thunnus obesus) and yellowfin (T. albacares) in Hawaii's pelagic fisheries: analysis of tagging with a bulk transfer model incorporating size-specific attrition. Fish. Bull.
101:215-228.

Benjamin, D.M., and J.R. Bence. 2003. Statistical catch-at-age assessment of Chinook salmon in Lake Michigan, 1985-1996. Michigan Department of Natural Resources, Fisheries Division, Fisheries Research Report 2066.

Bigelow, K.A., and M.N. Maunder. 2007. Does habitat or depth influence catch rates of pelagic species?, Can. J. Fish. Aqu. Sci. 64:1581−1594.

Bonfil, R.; Duffy, C.; Francis, M.P.; Manning, M.J.; O'Brien, S.M. (submitted). Large-scale tropical migrations, temperature preferences and diving behavior of great white sharks (Carcharodon carcharias) from New Zealand. Manuscript submitted to Marine Ecology Progress Series for publication, August 2007.

Branch, T. A., E. M. N. Abubaker, S. Mkango, and D. S. Butterworth. 2007. Separating southern blue whale subspecies based on length frequencies of sexually mature females. Marine Mammal Science. 23: 803-833.

Branch, T. A., K. Matsuoka, and T. Miyashita. 2004. Evidence for increases in Antarctic blue whales based on Bayesian modelling. Marine Mammal Science 20:726-754.

Branch, T.A. & Mikhalev, Y.A. 2008. Regional differences in length at sexual maturity for female blue whales based on recovered Soviet whaling data. Marine Mammal Science.  

Branch, T.A., Mikhalev, Y.A. & Kato, H. 2009. Separating pygmy and Antarctic blue whales using long-forgotten ovarian data. Marine Mammal Science.

Breen, P.A.., Hilborn, R., Maunder, M.N., and Kim, S.W. 2003a. Effects of alternative control rules on the conflict between a fishery and a threatened sea lion (Phocarctos hookeri). Can. J. Fish. Aquat. Sci. 60: 527-541.

Breen,P.A., S.W. Kim & N.L. Andrew. 2003b. A length-based Bayesian stock assessment model for abalone. Marine and Freshwater Research 54(5): 619-634. Bull, B. and Cordue, P.L. 2000. Sensitivities of fishery performance indicators to the
assumptions of a single stock model. New Zealand Fisheries Assessment Report
2000/39. 33 p.

J.L. Butler, L.D. Jacobson, J.T. Barnes, and H.G. Moser. 2003. Biology and population dynamics of cowcod (Sebastes levis) in the southern California Bight. Fish. Bull. 101: 260-280.

Chen, Y. and D. Fournier. 1999. Impacts of atypical data on Bayesian inference and robust Bayesian approach in fisheries. Canadian Journal of Fisheries and Aquatic Sciences 56:1525-1533.

Chen,Y., P.A. Breen & N.L. Andrew. 2001. Impacts of outliers and mis-specification of priors on Bayesian fisheries stock assessment. Canadian Journal of Fisheries and Aquatic Sciences 57: 2293-2305.

Chen, Y. and M. Hunter. 2003. Assessing the green sea urchin (Strongylocentrotus drobachiensis) stock in Maine, USA. Fisheries Research 60:527-537.

Chen, Y., Y. Jiao, and L. Chen. 2003. A general approach to developing robust frequentist and Bayesian stock assessment methods in fisheries. Fish and Fisheries 4:105-120.

Chen, Y., M. Kanaiwa, and C. Wilson. 2005. Developing a Bayesian stock assessment framework for the American lobster fishery in the Gulf of Maine. New Zealand Journal of Freshwater and Marine Sciences (Special issue on Lobster Biology and Management) 39:645-660.

Collie, J.S. and A.K. DeLong. 1999. Multispecies interactions in the Georges Bank fish community. In, Ecosystem approaches for fisheries management. Alaska Sea Grant College Program, AK-SG-99-01, p 187-210.

Coggins, L. G. J., W. E. I. Pine, C. J. Walters, and S. J. D. Martell. 2006. Age-structured mark-recapture analysis: A virtual-populatoin-analysis-based model for analyzing age-structured capture-recapture data. North American Journal of Fisheries Management 26:201-205.

Cooper, A.B., R. Hilborn, and J.W. Unsworth. 2003. An approach for population assessment in the absence of abundance indices. Ecological Applications 13(3): 814-818.

Cordue, P.L., Coombs, R.F., and Macaulay, G.J. 2001: A least squares method of estimating length to target strength relationships from in situ target strength distributions and length frequencies. J. Acoust. Soc. Am. 109: 155–163.

Cui., G., Bax, N.J., Punt, A.E. and I.A. Knuckey. 2001. Estimating gill-net selectivity for five species caught in the South East Fishery, Australia. Mar. Freshwater Res. 52: 691-699.

Cui, G., Punt, A.E., Pastene, L.A. and M. Goto. 2002. Bayes and Empirical Bayes approaches to addressing stock structure questions using mtDNA data, with an illustrative application to the North Pacific minke whales. J. Cetecean Res. Manage. 4(2): 123-134.

Dorn, M.W. 2002. Advice on West Coast rockfish harvest rates from Bayesian meta-analysis of stock–recruit relationships. N. Am. J. Fish. Manag. 22: 280–300.

Deriso, R.B., Maunder, M.N., and Skalski, J.R. (2007). Variance estimation in integrated assessment models and its importance for hypothesis testing. Can. J. Fish. Aquat. Sci. 64: 187-197

Deriso, R.B., Maunder, M.N., and Pearson, W.H. (2008) Incorporating covariates into fisheries stock assessment models with application to Pacific herring of Prince William Sound, Alaska. Ecological Applications 18(5): 1270-1286.

Dichmont, C.M., Deng, A., Punt, A., Venables, W. and Haddon, M. 2006. Management Strategies for short lived species: the case of Australia’s Northern Prawn Fishery. 1. Accounting for multiple species, spatial structure and implementation uncertainty when evaluating risk. Fisheries Research. 82: 204–220.

Dichmont, C.M., Deng, A., Punt, A., Venables, W. and Haddon, M. 2006. Management Strategies for short lived species: the case of Australia’s Northern Prawn Fishery 2. Choosing appropriate management strategies using input controls. Fisheries Research. 82: 221–234.

Dichmont, C.M., Deng, A., Punt, A., Venables, W. and Haddon, M. 2006. Management Strategies for short lived species: the case of Australia’s Northern Prawn Fishery 3. Factors affecting management and estimation performance. Fisheries Research. 82: 235–245.

Dichmont, C.M., Punt, A.E, Deng, A, Dell, Q and Venables, W. 2003. Application of a weekly delay-difference model to commercial catch and effort data for tiger prawns in Australia’s Northern Prawn Fishery. Fisheries Research. 65: 335-350.

Ebener, M.P., J.R. Bence, K. Newman and P. Schneeberger. 2005. Application of Statistical catch-at-age models to assess lake whitefish stocks in the 1836 treaty-ceded waters of the upper Great Lakes. Pages 271-309 in L.C. Mohr and T.F. Nalepa eds., Proceedings of a workshop on the dynamics of lake whitefish (Coregonus clupeaformis) and the amphipod Diporeia spp. in the Great Lakes. Great Lakes Fish. Comm. Tech. Rep. 66. Available at: http://www.glfc.org/pubs/TechReports/Tr66.pdf

Fenichel, E. P. and Horan, R. D. 2007 Gender-based harvesting in wildlife disease management. American Journal of Agricultural Economics.

Fournier, D.A., Hampton, J. and Sibert, J.R. 1998. MULTIFAN-CL: a length-based, agestructured model for fisheries stock assessment, with application to South Pacific albacore, Thunnus alalunga. Canadian Journal of Fisheries and Aquatic Science 55, 2105-2116.

Fournier, D.A., Sibert, J.R., Majkowski, J. and Hampton, J. 1990. MULTIFAN a likelihood-based method for estimating growth parameters and age-composition from multiple length frequency data sets illustrated using data for southern bluefin tuna (Thunnus maccoyii). Canadian Journal of Fisheries and Aquatic Science 47,301-317.

Gibson, A.J.F. and Myers, R.A. 2003. A statistical, age-structured, life-history-based stock assessment model for anadromous alosa. American Fisheries Society Symposium 35: 275-283.

Haeseker, S., M. Jones, and J. Bence. 2003. Estimating uncertainty in the stock-recruitment relationship for St. Marys River sea lampreys. Journal of Great Lakes Research 29 (Supplement 1): 728-741.

Haist, V. 1998. Integrated catch-age mark-recapture model: application to B.C. sablefish stocks. In: Fishery Stock Assessment Models (Proceedings of the International Symposium on Fishery Stock Assessment Models for the 21st Century, October 8-
11, 1997, Anchorage, Alaska) F. Funk, T.J. Quinn II, J. Heifetz, J.N. Ianelli, J.E. Powers, J.J. Schweigert, P.J. Sullivan, and C.I. Zhang eds. Alaska Sea Grant College Program Report No. AK-SG-98-01, University of Alaska Fairbanks, pp. 679-692.

Hampton, J. and Fournier, D.A. 2001. A spatially disaggregated, length-based, agestructured population model of yellowfin tuna (Thunnus albacares) in the western and central Pacific Ocean. Marine and Freswater Research 52, 937-963.

Hancet, S., V. Haist and D. Fournier. 1998. An integrated assessment of southern blue whiting (Micromesistius australis) from New Zealand using separable Sequential Population Analysis. Pages 155-170 in F. Funk, T.J. Quinn II, J. Heifetz, J.N.
Ianelli, J.E. Powers, J.F. Schweigert, P.J. Sullivan and C.I. Zhang, editors. Fishery Stock Assessment Models. Alaska Sea Grant College Program Report No. AKSG- 98-01, University of Alaska Fairbanks.

He, X.J. and J.R. Bence. 2007. Modeling annual growth variation using a hierarchical Bayesian approach and the von Bertalanffy growth function, with application to lake trout in southern Lake Huron. Transactions of the American Fisheries Society 136:318–330.

Hicks, A.C., Cordue, P.L., and Bull, B. 2002: Estimating proportions at age and sex in the commercial catch of hoki (Macruronus novaezelandiae) using length frequency data. New Zealand Fisheries Assessment Report 2002/43. 51 p.

Hilborn, R.H., Parma, A., and Maunder, M.N. 2002. Exploitation rate reference points for west coast rockfish: are they robust and are there better alternatives? North American Journal of Fisheries Management, 22: 365-375.

Holland, K. N., R.W. Brill, R.K.C. Chang, J.R. Sibert and D.A. Fournier. 1992. Physiological and behavioural thermogregulation in bigeye tuna (Thunnus obesus). Nature 358:410-412.

Holland, K.N. and J.R. Sibert. 1994. Physiological thermoregulation in bigeye tuna, Thunnus obesus. Env. Biol. of Fishes 40:319-217.

Hollowed, A.B., Ianelli, J.N., and Livingston, P.A. 2000. Including predation mortality in stock assessments: A case study involving Gulf of Alaska walleye pollock. ICES Journal of Marine Science 57: 279-293

Hoyle, S. D. and Maunder, M.N. 2004. A Bayesian integrated population dynamics model to analyze data for protected species. EURING proceedings. Animal Biodiversity and Conservation, 27(1): 247-266.

Hyun, S., Hilborn, R., Anderson, J.J., and Ernst, B. 2005. A statistical model for inseason forecasts of sockeye salmon returns to the Bristol Bay districts of Alaska. CJFAS 62: 1665-1680.

Ichinokawa, M, Coan, A.L., and Takeuchi, Y. 2008. Transoceanic migration rates of young North Pacific albacore, Thunnus alalunga, from conventional tagging data. Canadian Journal of Fisheries and Aquatic Sciences, 65(8): 1681-1691.

Jurado-Molina, J. Livingston, P.A. and Ianelli, J.N. (2005) Incorporating predation interactions in a statistical catch-at-age model for a predator–prey system in the eastern Bering Sea. Can. J. Fish. Aquat. Sci. 62: 1865–1873

Kanaiwa, M., Y. Chen, and M. Hunter. 2005. An evaluation of a complex length-based fisheries stock assessment model for the green sea urchin fishery in Maine, USA. Fisheries Research 74:96-115.

Kitakado, T., Kitada, S., Kishino, H., and Skaug, H.J. 2006. An Integrated-Likelihood Method for Estimating Genetic Differentiation Between Populations. Genetics 173: 2073–2082

Kleiber, P. and Hampton, J. 1994. Modelling effects of FADs and islands on movement of skipjack tuna (Katsuwonus pelamis): Estimating parameters from tagging data. Can.J.Fish.Aquat.Sci. 51;2642--2653.

Lessard, R.B, Hilborn, R., and Chasco, B. E. 2008. Escapement goal analysis and stock reconstruction of sockeye salmon populations (Oncorhynchus nerka) using life-history models. Canadian Journal of Fisheries and Aquatic Sciences, 65(10): 2269-2278.

Linton, B.C. and Bence, J.R. 2008. Evaluating methods for estimating process and observation error variances in statistical catch-at-age analysis. Fisheries Research, 94(1): 26-35.

Lunde, A., Paulsen, J., Skaug, H.J. (2008). Fitting mixed-effects models when data are left truncated. Insurance: Mathematics and Economics 41: 121-133.

 Magnusson, A. and R. Hilborn. 2007. What makes fisheries data informative? Fish and Fisheries 8:337-358.

Maunder, M.N. 2001a. Integrated Tagging and Catch-at-Age ANalysis (ITCAAN). In Spatial Processes and Management of Fish Populations, edited by G.H. Kruse,N. Bez, A. Booth, M.W. Dorn, S. Hills, R.N. Lipcius, D. Pelletier, C. Roy, S.J. Smith, and D. Witherell, Alaska Sea Grant College Program Report No. AK-SG-
01-02, University of Alaska Fairbanks, pp. 123-146.

Maunder M.N. 2001b. A general framework for integrating the standardization of catchper- unit-of-effort into stock assessment models. Can. J. Fish. Aquat. Sci., 58: 795- 803.

Maunder, M.N. 2002. Growth of skipjack tuna (Katsuwonus pelamis) in the eastern Pacific Ocean, as estimated from tagging data. Inter-American Tropical Tuna Commission Bulliten, 22(2): 93-131.

Maunder, M.N. (2003) Paradigm shifts in fisheries stock assessment: from integrated analysis to Bayesian analysis and back again. Natural Resource Modeling, 16(4): 465-475.

Maunder M.N. (2004) Population Viability Analysis, Based on Combining Integrated, Bayesian, and Hierarchical Analyses. Acta Oecologica 26: 85-94. Special issue for the Extinction Working Group of the National Center for Ecological Synthesis and Analysis. http://fisheriesstockassessment.com/files/PVA.pdf

Maunder, M.N. and Deriso, R.B. (2004) Estimation of recruitment in catch-at-age models. Can. J. Fish. Aquat. Sci. 60: 1204-1216.

Maunder, M.N. and Langley, A.D. 2004 Integrating the standardization of catch-per-unitof- effort into stock assessment models: testing a population dynamics model and using multiple data types. Fisheries Research 70(2-3): 389-395.

Maunder, M.N. and Hinton, M.G. (2006) Estimating relative abundance from catch and effort data, using neural networks. Inter-American Tropical Tunna Commission Special Report 15. pp. 19. http://www.iattc.org/PDFFiles2/Special-Report-15-Neural-Networks.pdf

Maunder, M.N. and Starr, P.J. 2001. Bayesian Assessment of the SNA1 snapper (Pagrus auratus) stock on the northeast coast of New Zealand. New Zealand Journal of Marine and Freshwater Research, 35: 87-110.

Maunder, M.N. and Watters, G.M. 2003a. A general framework for integrating environmental time series into stock assessment models: model description, simulation testing, and example. Fishery Bulletin, 101: 89-99.

Maunder, M.N. and Watters, G.M. 2003. A-SCALA: An Age-Structured Statistical Catch-at-Length Analysis for Assessing Tuna Stocks in the Eastern Pacific Ocean. Inter-Amer. Trop. Tuna Comm., Bull. 22(4) 433-582. (in English and Spanish)

Maunder M.N., Harley, S.J., and Hampton, J. (2006) Including parameter uncertainty in forward projections of computationally intensive statistical population dynamic models. ICES Journal of Marine Science 63: 969-979.

Maunder, M.N., Hinton, M.G., Bigelow, K.A., Langley, A.D. (2006) Developing indices of abundance using habitat data in a statistical framework. Bulletin of Marine Science, 79(3): 545–559.

Maunder M.N., Schnute, J.T., and Ianelli, J. (in press) Computers in Fisheries Population Dynamics. In Megrey, B. and Moksness, E. eds.. Computers in Fisheries Research. Kluwer Academic Publishers.

Maunder, M.N., Skaug, H.J., Fournier, D.A., and Hoyle, S.D. (2008) Comparison of estimators for mark-recapture models: random effects, hierarchical Bayes, and AD Model Builder. In: Modeling Demographic Processes in Marked Populations. Eds. Thomson, D.L., Cooch, E.G., and Conroy, M.J. Environmental and Ecological Statistics 3: 917-948.

McDermott, S.F. Fritzz, L.W., and Haist, V. In Press. Estimating movement and abundance of Atka mackerel (Pleurogrammus monopterygius) with tag-release data. In: Fisheries Oceanography Supplemental: The Aleutian Ecosystem: Processes controlling variability in productivity and ecosystem structure.

McDonald,A.D., T.H. Kendrick & P.A. Breen. 2001. An approach to using multiple indices of stock abundance in a multi-zone or multi-species fishery. ICES Journal of Marine Science 58(1): 204-215.

McGarvey, R., Feenstra, J.E., and Ye, Q. (2007) Modeling fish numbers dynamically by age and length: partitioning cohorts into "slices". Can. J. Fish. Aquat. Sci. 64: 1157-1173.

Millar, R. B, and R. D. Methot. 2002.Age structured meta-analysis of U. S. West Coast rockfish populations and hierarchical modeling of trawl survey catchabilities. Can. J. Fish. Aquat. Sci. 59: 383-392.

Millar, R. B. Accepted. Simulated maximum likelihood in practice. Aust. New Zealand J. Stat. To appear in 2004.

Meyey, R. Fournier, D., and Berg, A. 2003. Stochastic Volatility: Bayesian Computation Using Automatic Differentiation and the Extended Kalman Filter. The Econometrics Journal, 6: 408-420.

Meyer, R., and Christensen, N.L. 2002. Fast Bayesian reconstruction of chaotic dynamical systems via extended Kalman filtering. Phys. Rev. E , 65, 016206-8 Parma, A.M. 2001a Bayesian approaches to the analysis of uncertainty in the stock assessment of pacific halibut. American Fisheries Society Symposium 24, 111-
132.

Minte-Vera, C.V., Branch, T. A., Stewart, I. J., and Dorn, M.W. 2005. Practical application of meta-analysis results: avoiding the double use of data. Canadian Journal of Aquatic and Fisheries Sciences 62: 925-929. DOI: 10.1139/f04-245

Nielsen, A., and Lewy, P. 2002. Comparison of the frequentist properties of Bayes and the maximum likelihood estimators in an age-structured fish stock assessment model. Can. J. Fish. Aquat. Sci. 59(1):136-143.

Nielsen, A., K. Bigelow, M. Musyl and J. Sibert. 2006. Improving light-based geolocation by including sea surface temperature. Fish. Oceanog. 15:314-325.

Nielsen, A. and Sibert, J. 2007. State space model for light based tracking of marine animals. Can. J. Fish. Aquat. Sci. (in press).

Parma, A.M. 2001b. In search of robust harvest rules for Pacific halibut. In the face of uncertain assessments and decadal changes in productivity. Bulletin of Marine Science.

Punt, A.E. and A.D.M. Smith. 1999. Harvest strategy evaluation for the eastern stock of gemfish (Rexea solandri). ICES J. mar. Sci. 56(6): 860-875.

Punt, A.E., Smith, A.D.M. and G. Cui. 2002a. Evaluation of management tools for Australia's South East Fishery. 2. How well do commonly-used stock assessment methods perform? Mar. Feshw. Res. 53: 631-644.

Punt, A.E., Smith, A.D.M. and G. Cui. 2002b. Evaluation of management tools for Australia's South East Fishery. 3. Towards selecting appropriate harvest strategies. Mar. Feshw. Res. 53: 645-660.

Punt, A.E., Smith, D.C., Thomson, R.B., Haddon, M., He, X. and J.M. Lyle. 2001. Stock assessment of the blue grenadier Macruronus novaezelandiae resource off southeastern Australia. Mar. Freshwater Res. 52: 701-717.

Rutter, M.A., and J.R. Bence. 2003. An improved method to estimate sea lamprey wounding rate on hosts with application to lake trout in Lake Huron. Journal of Great Lakes Research 29 (Supplement 1): 320-331.

Schnute, J.T., Maunder, M.N., and Ianelli, J.N. (2008) Designing tools to evaluate fishery management strategies: can the scientific community deliver? ICES Journal of Marine Science, 64: 1077–1084.

Schnute, J.T. Richards, L.J. and Olsen, N. 1998. Statistics, software, and fish stock assessment. In fishery stock assessment models, edited by F. Funk, T.J. Quinn II, J. Heifetz, J.N. Ianelli, J.E. Powers, J.F. Schweigert, P.J. Sullivan, and C.I. Zhang, Alaska Sea Grant College Program Report No. AK-SG-98-01, University of Alaska Fairbanks, 1998.

Sibert, J. R., J. Hampton, D. A. Fournier, and P. J. Bills. 1999. An advection-diffusion-reaction model for the estimation of fish movement parameters from tagging data, with application to skipjack tuna (Katsuwonus pelamis). Can. J. Fish. Aquat. Sci. 56: 925-938.

Sibert, J. K. Holland and D. Itano. 2000. Exchange Rates of Yellowfin and Bigeye Tunas and Fishery Interaction Between Cross Seamount and Near-shore FADs in Hawaii. Aquatic Living Resources. 13 (4): 225-232.

Sibert, J. and D. Fournier. 2001. Possible models for combining tracking data with conventional tagging data. Electronic Tagging and Tracking in Marine Fisheries. Sibert, J. R. and J. Nielsen (eds), pp 443-456.

Sibert, J., M. Musyl, and R. Brill. 2003. Horizontal movements of bigeye tuna near Hawaii determined by Kalman filter analysis of archival tagging data. Fish. Oceanog. 12:3, 141-151.

Sibert, J. R., Lutcavage, M., Nielsen, A., Brill, R.. and Wilson, S. 2006. Inter-annual variation in large-scale movement of Atlantic bluefin tuna (Thunnus thynnus) determined from pop-up satellite archival tags. Can. J. Fish. Aquat. Sci. 63: 2154-2166.

Sitar, S.P., J.R. Bence, J. Johnson, M.P. Ebener, and W.W. Taylor. 1999. Lake trout mortality and abundance in Southern Lake Huron. North American Journal of Fisheries Management 19:881-900

Skaug, H.J. (2002), Automatic differentiation to facilitate maximum likelihood estimation in nonlinear random effects models. Journal of Computational and Graphical Statistics. 11 p. 458-470. 

Skaug, H.J. (2006) Markov modulated Poisson processes for clustered line transect data. Environmental and Ecological Statistics, 13: 199-211

Skaug, H.J., Nils Øien, Tore Schweder, Gjermund Bøthun (2004), Abundance of minke whales (Balaenoptera acutorostrata) in the Northeastern Atlantic; Canadian Journal of Fisheries and Aquatic Sciences.  61 p. 870-886.

Skaug, H.J., Fournier D. (2006) Automatic Approximation of the Marginal Likelihood in non-Gaussian Hierarchical Models. Computational Statistics and Data Analysis, 51: 699 - 709.

Skaug, H.J., Frimannslund, L., Øien, N. (2007) Historical population assessment of Barents Sea harp sea's (Pagophilus groenlandicus). ICES Journal of Marine Science 64: 1356-1365.

Smith, A.D.M. and A.E. Punt. 1998. Stock assessment of gemfish (Rexea solandri) in eastern Australia using maximum likelihood and Bayesian methods. p. 245-286. In: T.J. Quinn II, F. Funk, J. Heifetz, J.N. Ianelli, J.E. Powers, J.F. Schweigert, P.J. Sullivan and C-I Zhang Ed. Fisheries Stock Assessment Models, Alaska Sea Grant College Program, AK-SG-98-01.

Sparrevohn, C. R., Nielsen A. and Støttrup J. G. 2002. Diffusion of fish from a single release point. Can. J. Fish. Aquat. Sci. 59(5):844-853

Szalai, E.B., G.W. Fleischer, and J.R. Bence. 2003. Modeling time varying growth using a generalized von Bertalanffy model with application to bloater (Coregonus hoyi) growth dynamics in Lake Michigan. Canadian Journal of Fisheries and Aquatic Sciences. 60: 55 66.

Taylor, N., C. J. Walters, and S. J. D. Martell. 2005. A new likelihood for simultaneously estimating von Bertalanffy growth parameters, gear selectivity, and natural and fishing mortality. Can. J. Fish. Aquat. Sci. 62:215-223.

Trenkel, V.M. 2008. A two-stage biomass random effects model for stock assessment without catches: What can be estimated using only biomass survey indices? Canadian Journal of Fisheries and Aquatic Sciences, 65(6): 1024-1035.

Trenkel, V., Skaug, H.J. (2005) Disentangling the effects of trawl efficiency and population abundance on catch data using random effects models. ICES Journal of Marine Science, 62: 1543-1555.

Walsh, C.T., Pease, B.C., Hoyle, S.D., and Booth, D.J. (2006). Variability in growth of longfinned eels among coastal catchments of south-eastern Australia. Journal of Fish Biology 68: 1693-1706.

Wang SP, Sun CL, Punt AE, et al. (2007) Application of the sex-specific age-structured assessment method for swordfish, Xiphias gladius, in the North Pacific. Ocean Fisheries Research 84(3): 282-300

Wang SP, Sun CL, Punt AE, et al. (2005) Evaluation of a sex-specific age-structured assessment method for the swordfish, Xiphias gladius, in the North Pacific Ocean. Fisheries Research 73(1-2): 79-97.

Wilson, S.G., Stewart, B.S., Polovina, J. J., Meekan, M. G., Stevens, J.D., Galuardi, B (2007)
Accuracy and precision of archival tag data: a multiple-tagging study conducted on a whale shark (Rhincodon typus) in the Indian Ocean Fisheries Oceanography (OnlineEarly Articles).
doi:10.1111/j.1365-2419.2007.00450.x

Ye, Y., Dennis, D., and Skewes, T. 2008. Estimating the sustainable lobster (Panulirus ornatus) catch in Torres Strait, Australia, using an age-structured stock assessment model. Continental Shelf Research, 28(16): 2160-2167.