Bibliography

The following references list follows the the American Meteorological Society (AMS) guidelines for citation style (PDF).

A

Allen, S. E., M. S. Dinniman, J. M. Klinck, B. M. Hickey, D. D. Gorby, A. J. Hewett, 2003: On vertical advection truncation errors in terrain following numerical models: Comparison to a laboratory model for upwelling over submarine canyons, J. Geophys. Res., 108 (C1), 1-16, doi:10.1029/2001JC000978. (PDF)

Arakawa, A. and V. R. Lamb, 1977: Methods of computational physics, Academic Press, 174-265.

Arango, H. G., A. M. Moore, A. J. Miller, B. D. Cornuelle, E. Di Lorenzo, and D. J. Neilson, 2003: The ROMS Tangent Linear and Adjoint Models: A comprehensive ocean prediction and analysis system, IMCS Technical Reports, Rutgers Univeristy, 69pp. (PDF)

B

Bissett, W.P., J.J. Walsh, D.A. Dieterle, K.L. Carder, 1999: Carbon cycling in the upper waters of the Sargasso Sea: I. Numerical simulation of differential carbon and nitrogen fluxes, Deep-Sea Res., 46, 205-269.

Budgell, W.P., 2005: Numerical simulation of ice-ocean variability in the Barents Sea region, Ocean Dynamics, DOI 10.1007/s10236-005-0008-3. (PDF)

C

Canuto, V. M., A. Howard, Y. Cheng, M. S. Dubovikov, 2001: Ocean turbulence I: one-point closure model. Momentum and heat vertical diffusivities, J. Phys. Oceanogr., 31, 1413-1426.

Chapman, S. J., 2004: Fortan 90/95 for Scientists and Engineers. Second Edition. McGraw-Hill. 814 pp.

Chassignet, E. P., H. G. Arango, D. Dietrich, T. Ezer, M. Ghil, D. B. Haidvogel C.-C. Ma, A. Mehra, A. M. Paiva, Z. Sirkes, 2000: DAMEE-NAB: The Base Experiments, Dyn. Atmos. Oceans, 32, 155-183. (PDF)

Chua, B. S. and A. F. Bennett, 2001: An inverse ocean modeling system, Ocean Modelling, 3, 137-165. (PDF)

D

Di Lorenzo, E., 2003: Seasonal dynamics of the surface circulation in the southern California Current System, Deep-Sea Res., Part II, 50, 2371-2388.

Di Lorenzo, E., A.M. Moore, H.G. Arango, B.D. Cornuelle, A.J. Miller, B. Powell, B.S. Chua, and A.F. Bennett, 2006: Weak and Strong Constraint Data Assimilation in the inverse Regional Ocean Modeling System (ROMS): development and applications for a baroclinic costal upwelling system, Ocean Modelling, in press.

Dinniman, M. S. and J. M. Klinck, 2002: The influence of open versus periodic alongshore boundaries on circulations near submarine canyons, J. Atmos. Oceanic Tech., 19, 1722-1737 (PDF)

Dinniman, M. S., J. M. Klinck, and W. O. Smith Jr., 2003: Cross shelf exchange in a model of the Ross Sea circulation and biogeochemistry, Deep-Sea Res., Part II, 50, 3103-3120. (PDF)

Dinniman, M. S. and J. M. Klinck, 2004: A model study of circulation and cross shelf exchange on the west Antarctic Peninsula continental shelf, Deep-Sea Res., Part II, 51, 2003-2022. (PDF)

Durski, S. M., S. M. Glenn, D. B. Haidvogel, 2004: Vertical mixing schemes in the coastal ocean: Comparison of the Level 2.5 Mellor-Yamada scheme with an enhanced version of the K-profile parameterization, J. Geophys. Res., 109, C01015, doi:10.1029/2002JC001702. (PDF)

E

Ezer, T., H. G. Arango and A. F. Shchepetkin, 2002: Developments in terrain-following ocean models: intercomparisons of numerical aspects, Ocean Modelling, 4, 249-267. (PDF)

F

Fairall, C. W., E. F. Bradley, D. P. Rogers, J. B. Edson and G. S. Young, 1996: Bulk parameterization of air-sea fluxes for tropical ocean-global atmosphere Coupled-Ocean Atmosphere Response Experiment, J. Geophys. Res., 101, 3747-3764

Fennel, K., J. Wilkin, J. Levin, J. Moisan, J. O'Reilly, and D. Haidvogel, 2006: Nitrogen cycling in the Middle Atlantic Bight: Results from a three-dimensional model and implications for the North Atlantic nitrogen budget, Global Biogeochem. Cycles, 20, GB3007, doi:10.1029/2005GB002456. (PDF)

Freeman, N. G., A. M. Hale, and M. B. Danard, 1972: A modified sigma equations' approach to the numerical modeling of great lake hydrodynamics, J. Geophys. Res., 77, 1050-1060.

G

Galperin, B., L. H. Kantha, S. Hassid, and A. Rosati, 1988: A quasi-equilibrium turbulent energy model for geophysical flows, J. Atmos. Sci., 45, 55-62.

H

Haidvogel, D. B. and A. Beckmann, 1999: Numerical Ocean Circulation Modeling. Series on Environmental Science and Management, Vol. 2, Imperial College Press, 319 pp.

Haidvogel, D. B., H. G. Arango, K. Hedstrom, A. Beckmann, P. Malanotte-Rizzoli, and A. F. Shchepetkin, 2000: Model evaluation experiments in the North Atlantic Basin: Simulations in nonlinear terrain-following coordinates, Dyn. Atmos. Oceans, 32, 239-281. (PDF)

Hakkinen, S. and G. L. Mellor, 1992: Modeling the seasonal variability of a coupled arctic ice-ocean system, J. Geophys. Res., 97, 20285-20304.

Hibler, III, W. D., 1979: A dynamic thermodynamic sea ice model, J. Phys. Oceanogr., 9, 815-846.

Hunke, E. C., 2001: Viscous-plastic sea ice dynamics with the EVP model: linearization issues, J. Comp. Phys., 170, 18-38.

Hunke, E. C. and J. K. Dukowicz, 1997: An elastic-viscous-plastic model for sea ice dynamics, J. Phys. Oceanogr., 27, 1849-1868.

J

Jackett, D. R. and T. J. McDougall, 1995: Minimal Adjustment of Hydrostatic Profiles to Achieve Static Stability, J. Atmos. Oceanic Techn., 12, 381-389.

K

Kantha, L.H., C.A. Clayson, 1994: Nermerical Models of Oceans and Oceanic Processes. In: International Geophysics Series, Vol. 66. Academic Press, San Diego. 940 pp.

Kosters, F., 2004: Denmark Strait overflow: Comparing model results and hydraulic transport estimates, J. Geophys. Res., 109, C10011, doi:10.1029/2004JC002297. (PDF)

L

Large, W. G., J. C. McWilliams, and S. C. Doney, 1994: Oceanic vertical mixing: a review and a model with a nonlocal boundary layer parameterization, Rev. Geophys., 32, 363-403.

M

MacCready, P. and W. R. Geyer, 2001: Estuarine salt flux through an isohaline surface, J. Geophys. Res., 106 (C6), 11629-11637. (PDF)

Malanotte-Rizzoli, P., K. Hedstrom, H.G. Arango, and D.B. Haidvogel, 2000: Water mass pathways between the subtropical and tropical ocean in a climatological simulation of the North Atlantic ocean circulation, Dyn. Atmos. Oceans, 32, 331-371. (PDF)

Marchesiello, P., J. C. McWilliams, A. F. Shchepetkin, 2001: Open boundary conditions for long-term integration of regional ocean models, Ocean Modelling, 3, 1-20. (PDF)

Marchesiello, P., J. C. McWilliams, and A. Shchepetkin, 2003: Equilibrium structure and dynamics of the California Current System, J. Phys. Oceanogr., 33, 753-783. (PDF)

Mellor, G. L. and T. Yamada, 1982: Developement of a turbulence closure model for geophysical fluid problems, Rev. Geophys. Space Phys., 20, 851-875.

Mellor, G. L. and L. Kantha, 1989: An ice-ocean coupled model, J. Geophys. Res., 94, 10,937-10,954.

Moore, A. M., H. G. Arango, A. J. Miller, B. D. Cornuelle, E. Di Lorenzo and D. J. Neilson, 2004: A Comprehensive Ocean Prediction and Analysis System Based on the Tangent Linear and Adjoint Components of a Regional Ocean Model, Ocean Modelling, 7, 227-258. (PDF)

Moore, A.M., H.G. Arango, E. Di Lorenzo, A.J. Miller and B.D. Cornuelle, 2006: An adjoint sensitivity analysis of the southern portion of the California Current circulation and ecosystem, Part I: The physical circulation, J. Phys. Oceanogr., submitted.

Muccino, J. C., H. G. Arango, A. B. Bennett, B. S. chua, B. D. Cornuelle, E. Di Lorenzo, G. D. Egbert, D. B. Haidvogel, L. Hao, J. C. Levin, A. J. Miller, A. M. Moore, and E. D. Zaron, 2006: The Inverse Ocean Modeling System. II: Applications, J. Atmos. Oceanic Tech., submitted.

P

Peliz, A., J. Dubert, D. B. Haidvogel, 2003: Subinertial Response of a Density-Driven Eastern Boundary Poleward Current to Wind Forcing, J. Phys. Oceanogr., 33, 1633-1650. (PDF)

Peliz, A., J. Dubert, D. B. Haidvogel, and B. Le Cann, 2003: Generation and unstable evolution of a density-driven Eastern Poleward Current: The Iberian Poleward Current, J. Geophys. Res., 108 (C8), 3268, doi:10.1029/2002JC001443. (PDF)

Penven, P., C. Roy, A. Colin de Verdiere and J. Largier, 2000: Simulation of a coastal jet retention process using a barotropic model, Oceanology Acta, 23(5), 615-634. (PDF)

Penven, P., C. Roy, J.R.E. Lutjeharms, A. Colin de Verdiere, A. Johnson, F. Shillington, P. Freon and G. Brundrit, 2001: A regional hydrodynamic model of the Southern Benguela, S. Afr. J. Sci. Res. Letters, 97, 1-4. (PDF)

Penven, P., J. R. E. Lutjeharms, P. Marchesiello, C. Roy and S. J. Weeks, 2001: Generation of cyclonic eddies by the Agulhas Current in the lee of the Agulhas Bank, Geophys. Res. Letters, 27, 1055-1058. (PDF)

Phillips, N. A., 1957: A coordinate system having some special advantages for numerical forecasting, J. Meteorology, 14, 184-185.

Powell T. P., C. V. W. Lewis, E. N. Curchitser, D. B. Haidvogel, A. J. Hermann, E. L. Dobbins (2006), Results from a three-dimensional, nested biological-physical model of the California Current System and comparisons with statistics from satellite imagery, J. Geophys. Res., 111, C07018, doi:10.1029/2004JC002506.

R

Robertson, R., 2006: Modeling internal tides over Fieberling Guyot: resolution, parameterization, performance, Ocean Dynamics, doi:10.1007/s10236-006-0062-5. (PDF)

S

Semtner, Jr., A. J., 1976: A model for the thermodynamic growth of sea ice in numerical investigations of climate, J. Phys. Oceanogr., 6, 379-389.

Shchepetkin, A. F., and J. C. McWilliams, 1998: Quasi-monotone advection schemes based on explicit locally adaptive dissipation, Monthly Weather Rev., 126, 1541-1580. (PDF)

Shchepetkin, A. F., and J. C. McWilliams, 2003: A method for computing horizontal pressure-gradient force in an oceanic model with a nonaligned vertical coordinate, J. Geophys. Res., 108 (C3), 3090, doi:10.1029/2001JC001047. (PDF)

Shchepetkin, A. F., and J. C. McWilliams, 2005: The Regional Ocean Modeling System: A split-explicit, free-surface, topography following coordinates ocean model, Ocean Modelling, 9, 347-404. (PDF)

She, J. and J. M. Klinck, 2000: Flow near submarine canyons driven by constant winds, J. Geophys. Res., 105(C12), 28671-28694. (PDF)

Smith, W.O., Jr., M.S. Dinniman, J.M. Klinck and E.E. Hofmann, 2003: Biogeochemical Climatologies of the Ross Sea, Antarctica: Seasonal Patterns of Nutrients and Biomass, Deep-Sea Res., Part II, 50, 3083-3101. (PDF)

Song, Y. and D. B. Haidvogel, 1994: A semi-implicit ocean circulation model using a generalized topography-following coordinate system, J. Comp. Phys., 115 (1), 228-244. (PDF)

Styles, R. and S. M. Glenn, 2000: Modeling stratified wave and current bottom boundary layers in the continental shelf, J. Geophys. Res., 105, 24119-24139. (PDF)

U

Umlauf, L., H. Burchard, 2003: A generic length-scale equation for geophysical turbulence models, J. Marine Res., 61, 235-265.

W

Warner, J. C., C. R. Sherwood, H. G. Arango, and R. P. Signell, 2005a: Performance of four Turbulence Closure Methods Implemented using a Generic Length Scale Method, Ocean Modelling, 8, 81-113. (PDF)

Warner, J. C., W. R. Geyer, and J. A. Lerczak, 2005b: Numerical modeling of an estuary: A comprehensive skill assessment, J. Geophys. Res., 110, C05001, doi:10.1029/2004JC002691. (PDF)

Warner, J. C., C. R. Sherwood, R. P. Signell, C. Harris, and H. G. Arango, 2006: Development of a three-dimensional, regional, coupled wave-, current-, and sediment-transport model, submitted.

Wilkin, J. L., H. G. Arango, D. B. Haidvogel, C. S. Lichtenwalner, S. M. Durski, and K. S. Hedstrom, 2005: A regional Ocean Modeling System for the Long-term Ecosystem Observatory, J. Geophys. Res., 110, C06S91, doi:10.1029/2003JC002218. (PDF)

Winsor, P. and D. C. Chapman, 2004: Pathways of Pacific water across the Chukchi Sea: A numerical model study, J. Geophys. Res., 109, C03002, doi: 10.1029/2003JC001962. (PDF)