Standardizing catch and effort data: a review of recent approaches

Aitchison, 1955, On the distribution of a positive random variable having a discrete probability mass at the origin, J. Am. Statist. Assoc., 50, 901, 10.2307/2281175

Akaike, 1973, Information theory and an extension of the maximum likelihood principle, 268

Anderson, O.F., 2003. CPUE analysis and stock assessment of the East Cape hills (ORD 2A North) orange roughy fishery for 2003. NZ Fisheries Association Report No. 2003/24.

Ayers, D., 2003. Standardized CPUE analysis for the northern gemfish (Rexea solandri) fisheries in SKI 1 and SKI 2, 1989–2002. NZ Fisheries Association Research Document No. 2003/34.

Bannerot, 1983, Using frequency distributions of catch per unit effort to measure fish-stock abundance, Trans. Am. Fish. Soc., 112, 608, 10.1577/1548-8659(1983)112<608:UFDOCP>2.0.CO;2

Battaile, 2004, Catch per unit effort standardization of the eastern Bering Sea walleye Pollock (Theragra chalcogramma) fleet, Fish. Res., 70, 161, 10.1016/j.fishres.2004.08.029

Berry, 1987, Logarithmic transformations in ANOVA, Biometrics, 43, 439, 10.2307/2531826

Beverton, 1957

Bigelow, 1999, Environmental effects on swordfish and blue shark catch rates in the US North Pacific longline fishery, Fish. Oceanogr., 8, 178, 10.1046/j.1365-2419.1999.00105.x

Bishop, 2000, A generalized estimating equations approach for analysis of the impact of new technology on a trawl fishery, Aust. NZ J. Statist., 42, 159, 10.1111/1467-842X.00116

Brandão, 2004, Using a GLMM to estimate the somatic growth rate for male South African west coast rock lobster Jasus lalandi, Fish. Res., 70, 335, 10.1016/j.fishres.2004.08.012

Breen, P.A., Kim, S.W., 2003. The 2003 stock assessment of paua (Haliotis iris) in PAU 7. NZ Fisheries Association Research Document No. 2003/35.

Burnham, 2002

Butterworth, 1996, A possible alternative approach for generalized linear model analysis of tuna CPUE data, ICCAT Col. Vol. Sci. Pap., 45, 123

Butterworth, 1984, Dynamic catch-effort models for the hake stocks in ICSEAF Divisions 1.3 to 2.2, Col. Sci. Pap. Int. Commun. SE Atl. Fish., 11, 29

Butterworth, 2003, A statistical model for stock assessment of southern bluefin tuna with temporal changes in selectivity, Afr. J. Mar. Sci., 25, 331, 10.2989/18142320309504021

Campbell, 1998, Catch and effort analysis with uncertain stock and effort dynamics: southern bluefin tuna longline, 75

Campbell, 2004, CPUE standardisation and the construction of indices of stock abundance in a spatially varying fishery using general linear models, Fish. Res., 70, 209, 10.1016/j.fishres.2004.08.026

Casella, 1990

Chang, 2003, Analysis of Taiwanese white marlin catch data and standardization of catch rates, ICCAT Col. Vol. Sci. Pap., 55, 453

Cooke, 1985, On the relationships between catch per unit effort and whale abundance, Rep. Int. Whal. Commun., 35, 511

Cooke, 1984, The relationship between catch rates and abundance in fisheries, IMA J. Math. Appl. Med. Biol., 1, 291, 10.1093/imammb/1.4.391

Cooke, 1996, Consideration of statistical models for catch-effort indices for use in tuning VPAs, ICCAT Col. Vol. Sci. Pap., 45, 125

Cope, J.M., Piner, K., Minte-Vera, C., Punt, A.E., 2003. Status and future prospects for the cabezon (Scorpaenichthys marmoratus) as assessed in 2003. Pacific Fishery Management Council, Portland, OR.

Cragg, 1971, Some statistical models for limited dependent variables with applications to the demand for durable goods, Econometrica, 39, 829, 10.2307/1909582

Deriso, 1985, Catch-age analysis with auxiliary information, Can. J. Fish. Aquat. Sci., 42, 815, 10.1139/f85-104

Dichmont, 2003, Application of a weekly delay-difference model to commercial catch and effort data in Australia's Northern Prawn Fishery, Fish. Res., 65, 335, 10.1016/j.fishres.2003.09.024

Dick, 2004, Beyond ‘lognormal vs. gamma’: discrimination among error distributions for generalized linear models, Fish. Res., 70, 347, 10.1016/j.fishres.2004.08.013

Dobson, 1991

Dong, 1996, Notes on the Poisson error assumption made to estimate relative abundance of West Atlantic bluefin tuna, ICCAT Col. Vol. Sci. Pap., 45, 158

Dunn, A., Harley, S.J., Doonan, I.J., Bull, B., 2000. Calculation and interpretation of catch-per-unit-effort (CPUE) indices. NZ Fisheries Association Report No. 2000/1.

Fournier, 1982, A general theory for analyzing catch at age data, Can. J. Fish. Aquat. Sci., 39, 1195, 10.1139/f82-157

Fournier, 1998, MULTIFAN-CL: a length-based, age-structured model for fisheries stock assessment, with application to South Pacific albacore, Thunnus alalunga, Can. J. Fish. Aquat. Sci., 55, 2105, 10.1139/f98-100

Francis, R.I.C.C., 1999. The impact of correlations in standardized CPUE indices. NZ Fisheries Association Research Document No. 99/42.

Francis, R.I.C.C., Cordue, P.L., Haist, V., 2002. Review of the 2001 hoki stock assessment. NZ Fisheries Association Report No. 2002/42.

Francis, 2003, Quantifying annual variation in catchability for commercial and research fishing, Fish. Bull., US, 101, 293

Gavaris, 1980, Use of a multiplicative model to estimate catch rate and effort from commercial data, Can. J. Fish. Aquat. Sci., 37, 2272, 10.1139/f80-273

Guisan, 2002, Generalized linear and generalized additive models in studies of species distributions: setting the scene, Ecol. Mod., 157, 89, 10.1016/S0304-3800(02)00204-1

Gulland, 1956, On the fishing effort in English demersal trawl fisheries, Invest. Minst. Agric. Fish. Food UK (Ser. 2), 20, 1

Hall, 2000, Zero-inflated Poisson and binomial regression with random effects: a case study, Biometrics, 56, 1030, 10.1111/j.0006-341X.2000.01030.x

Harley, 2001, Is catch-per-unit-effort proportional to abundance?, Can. J. Fish. Aquat. Sci., 58, 1760, 10.1139/f01-112

Hastie, 2001

Hilborn, 1997

Hilborn, 1992

Hilborn, R., Maunder, M.N., Parma, A., Ernst, B., Paynes, J., Starr, P.J., 2000. Documentation for a general age-structured Bayesian stock assessment model: code named Coleraine. Fisheries Research Institute, University of Washington, FRI/UW 00/01.

Hinton, M.G., Maunder, M.N., 2003. Methods for standardizing CPUE and how to select among them. ICCAT Document No. SCRS/2003/034.

Hinton, 1996, Standardizing catch and effort statistics using physiological, ecological, or behavioral constraints and environmental data, with an application to blue marlin (Makaira nigricans) catch and effort data from the Japanese longline fisheries in the Pacific, Bull. Int. Am. Trop. Tuna Commun., 21, 171

Honma, 1973, Estimation of overall effective fishing intensity of tuna longline fishery, Bull. Far Seas Fish. Res. Lab., 10, 63

Horn, P.L., 2003. CPUE from commercial fisheries for ling (Genypterus balcodes) around the North Island, New Zealand: an evaluation of series for LIN 1, LIN 2, and Cook Strait. NZ Fisheries Association Report No. 2003/13.

Kimura, 1981, Standardized measures of relative abundance based on modelling log(c.p.u.e.), and the application to Pacific ocean perch (Sebastes alutus), J. Cons. Int. Explor. Mer., 39, 211, 10.1093/icesjms/39.3.211

Lambert, 1992, Zero-inflated Poisson regression, with application to random defects in manufacturing, Technometrics, 34, 1, 10.2307/1269547

Liang, 1986, Longitudinal data analysis using generalized linear models, Biometrika, 73, 12, 10.1093/biomet/73.1.13

Lo, 1992, Indices of relative abundance for fish spotter data based on delta-lognormal models, Can. J. Fish. Aquat. Sci., 49, 2515, 10.1139/f92-278

Maunder, 2001, A general framework for integrating the standardization of catch per unit of effort into stock assessment models, Can. J. Fish. Aquat. Sci., 58, 795, 10.1139/f01-029

Maunder, M.N., Harley, S.J., 2003. Methodological improvements to the EPO tuna stock assessments. SCTB16 Working Paper No. MWG-2. Available from the Inter-American Tropical Tuna Commission.

Maunder, 2004, Integrating the standardization of catch-per-unit-of-effort into stock assessment models: testing a population dynamics model and using multiple data types, Fish. Res., 70, 385, 10.1016/j.fishres.2004.08.015

Maunder, 2003, Fitting fisheries models to standardised CPUE abundance indices, Fish. Res., 63, 43, 10.1016/S0165-7836(03)00002-X

McCullagh, 1989

Methot, 1993, Synthesis model: an adaptable framework for analysis of diverse stock assessment data, Bull. Int. North Pac. Fish. Commun., 50, 259

Methot, R.D., 2000. Technical description of the stock synthesis assessment program. NOAA Technical Mimeograph No. NMFS-NWFSC-43, 56 pp.

Miyabe, 2003, Standardized bluefin CPUE from the Japanese longline fishery in the Atlantic including those for mixing studies, ICCAT Col. Vol. Sci. Pap., 55, 1190

Mullahy, 1986, Specification and testing of some modified count data models, J. Economet., 33, 341, 10.1016/0304-4076(86)90002-3

Myers, 1995, Statistical analysis of catch-at-age data with correlated errors, Can. J. Fish. Aquat. Sci., 52, 1265, 10.1139/f95-123

Myers, 1990, The robustness of lognormally-based estimators of abundance, Biometrics, 46, 1185, 10.2307/2532460

Nelder, 1972, Generalised linear models, J. R. Statist. Soc. A, 137, 370, 10.2307/2344614

1994

Ortiz, 2004, Alternative error distribution models for standardization of catch rates of non-target species from a pelagic longline fishery: billfish species in the Venezuelan tuna longline fishery, Fish. Res., 70, 275, 10.1016/j.fishres.2004.08.028

Pinheiro, 2000

Porch, 1994, A numerical evaluation of GLM methods for estimating indices of abundance from West Atlantic bluefin tuna catch per trip data when a high proportion of the trips are unsuccessful, ICCAT Col. Vol. Sci. Pap., 42, 241

Porter, 2003, Updated standardized CPUE indices for Canadian bluefin tuna fisheries based on commercial catch rates, ICCAT Col. Vol. Sci. Pap., 55, 1005

Prince, 1998, Concentration profiles and invertebrate fisheries management, 187

Punt, 2003, Specifications and clarifications regarding the ADAPT VPA assessment/projection computations carried out during the September 2000 ICCAT west Atlantic bluefin tuna stock assessment session, ICCAT Col. Vol. Sci. Pap., 55, 1041

Punt, 1997, Population modelling of Tasmanian rock lobster, Jasus edwardsii, resources, Mar. Freshw. Res., 48, 967, 10.1071/MF97070

Punt, 2000, Standardization of catch and effort data in a spatially-structured shark fishery, Fish. Res., 45, 129, 10.1016/S0165-7836(99)00106-X

Punt, 2000, Stock assessment of school shark Galeorhinus galeus based on a spatially-explicit population dynamics model, Mar. Freshw. Res., 51, 205, 10.1071/MF99124

Punt, 2001, Stock assessment of the blue grenadier Macruronus novaezelandiae resource off southeastern Australia, Mar. Freshw. Res., 52, 701, 10.1071/MF99136

Punt, A.E., Pribac, F., Walker, T.I., Taylor, B.L., 2001b. Population modeling and harvest strategy evaluation for school and gummy shark. Report of FRDC Project No. 99/102.

Quinn, 1982, Comparison of two methods of combining catch-per-unit-effort from geographic regions, Can. J. Fish. Aquat. Sci., 39, 837, 10.1139/f82-114

Ralston, S., Dick, E.J., 2003. The status of black rockfish (Sebastes melanops) off Oregon and northern Washington in 2003. Stock Assessment and Fishery Evaluation, Pacific Fishery Management Council, Portland, OR, v + 70 pp.

Ridout, 1998, Models for count data with many zeros, 179

Robins, 1998, The impact of global positioning systems and plotters on fishing power in the Northern Prawn Fishery, Australia, Can. J. Fish. Aquat. Sci., 55, 1645, 10.1139/f98-037

Robson, 1966, Estimation of the relative fishing power of individual ships, ICNAF Res. Bull., 3, 5

Rodríguez-Marín, 2003, Standardization of bluefin tuna, Thunnus thynnus, catch per unit effort in the baitboat fishery of the Bay of Biscay (Eastern Atlantic), ICES J. Mar. Sci., 60, 1216, 10.1016/S1054-3139(03)00139-5

Rousseeuw, 1987

Schnute, 1977, Improved estimates from the Schaefer production model: theoretical considerations, J. Fish. Res. Bd. Can., 34, 583, 10.1139/f77-094

Schwarz, 1978, Estimating the dimension of a model, Ann. Statist., 6, 461, 10.1214/aos/1176344136

Stefánsson, 1996, Analysis of groundfish survey abundance data: combining the GLM and delta approaches, ICES J. Mar. Sci., 53, 577, 10.1006/jmsc.1996.0079

Stephens, 2004, A multispecies approach to subsetting logbook data for purposes of estimating CPUE, Fish. Res., 70, 295, 10.1016/j.fishres.2004.08.009

Syrjala, 2000, Critique on the use of the delta distribution for the analysis of trawl survey data, ICES J. Mar. Sci., 57, 831, 10.1006/jmsc.2000.0571

Taylor, P.R., 2003. Standardized CPUE for the northwest Chatham Rise orange roughy fishery. NZ Fisheries Association Report No. 2003/32.

Vignaux, M., 1994. Catch per unit effort (CPUE) analysis of west coast South Island Cook Strait spawning hoki fisheries, 1987–93. NZ Fisheries Association Research Document No. 94/11.

Vignaux, 1996, Analysis of spatial structure in fish distribution using commercial catch and effort data from the New Zealand hoki fishery, Can. J. Fish. Aquat. Sci., 53, 963, 10.1139/cjfas-53-5-963

Walters, 2003, Folly and fantasy in the analysis of spatial catch rate data, Can. J. Fish. Aquat. Sci., 60, 1433, 10.1139/f03-152

Watters, 2000, Catch per unit of effort of bigeye tuna: a new analysis with regression trees and simulated annealing, Bull. Int. Am. Trop. Tuna Commun., 21, 527

Zeger, 1986, Longitudinal data analysis for discrete and continuous outcomes, Biometrics, 42, 121, 10.2307/2531248