Publications Rémi Choquet


  1. Choquet R., P. Leyland, T. Tefy (1995). "GMRES acceleration of iterative implicit finite element solvers for compressible Euler and Navier-Stokes equations. International Journal for Numerical Methods in Fluids". 20, No 8/9, pp 957-968.
  2. Choquet R. and J. Erhel (1996). "Newton-gmres algorithm applied to compressible flows". International Journal for Numerical Methods in Fluids, 23 pp. 177-190.
  3. Choquet R. and V. Perrier (2000). "Fast Wavelet Iterative Solvers applied to the Neumann Problem". Aerospace Science and Technologies. 4, pp 135-145, 2000.
  4. Gimenez O., R. Choquet, and J.-D. Lebreton (2003). "Parameter redundancy in multistate capture-recapture models". Biometrical Journal 45:704–722.
  5. Gimenez O., R. Choquet, L. Lamor, P. Scofield, D. Fletcher, J.-D. Lebreton and R. Pradel (2005). "Efficient Profile-Likelihood Confidence Intervals for Capture-Recapture Models." Jabes 10(2): 1-13.
  6. Rivalan P., A.-C. Prévot-Julliard, R. Choquet, R. Pradel, B. Jacquemin, M. Girondot (2005). "Trade-off between current reproductive effort and delay to next reproduction in the leatherback sea turtle". Oecologia, Volume 145, Issue 4, Pages 564 - 574.
  7. Rivalan P., R. Pradel, R. Choquet, M. Girondot, A.-C. Prévot-Julliard (2006). "Estimating clutch frequency in the sea turtle Dermochelys Coriacea using stopover duration". MEPS 317:285-295.
  8. Dormont, L., W. Baltensweiler, R. Choquet, A. Roques. (2006). "Larch- and pine-feeding host races of the larch bud moth (Zeiraphera diniana) have cyclic and synchronous population fluctuations." Oïkos 115: 299-307.
  9. Devineau, O., R. Choquet, J.D. Lebreton. (2006). “Planning capture-recapture studies: straightforward precision, bias and power calculations.” Wildlife society bulletin 34(4): 1028-1035.
  10. Gimenez, O., V. Rossi, R. Choquet, C. Dehais, B. Doris, H. Varella, J.-. Vila and R. Pradel (2007). State-space modelling of data on marked individuals. Ecological Modelling. 206: 431-438
  11. Pradel R., Maurin-Bernier L., Gimenez O., Genovart M., Choquet R. and Oro D. (2008). Estimation of sex-specific survival with uncertainty in sex assessment. The Canadian Journal of Statistics 36(1): 29-42.
  12. Choquet R. (2008). Automatic generation of multistate capture recapture models. The Canadian Journal of Statistics 36(1): 43-57.
  13. Jenouvrier S., Tavecchia G., Thibault J.C., Choquet R. and Bretagnolle V. (2008). Recruitment processes in long-lived species with delayed maturity: Estimating key demographic parameters. Oikos, 117(4), 620–628.
  14. Crespin L., Choquet R., Lima M.A., Merritt J.F. and Pradel R. (2008). Is heterogeneity of catchability in capture-recapture studies a mere sampling artifact or a biologically relevant feature of the population?. Population Ecology, 50(3), 247-256.
  15. Duriez O., S.A. Saether, B.J. Ens, R. Choquet, R. Pradel, R.H.D. Lambeck, M. Klaassen. (2009). Estimating survival and movements using both live and dead recoveries: a case study of Oystercatchers confronted with habitat change. Journal of Applied Ecology, 46(1), 144-153.
  16. Rouan L., R. Choquet, R. Pradel (2009). A General Framework for Modeling Memory in Capture-Recapture Data. Jabes, 14(3), 338-355.
  17. Choquet, R., Lebreton, J.D., Gimenez, O., Reboulet, A.M. and Pradel R. (2009). U-CARE: Utilities for performing goodness of fit tests and manipulating CApture-REcapture data. Ecography. 32: 1071-1074
  18. Gimenez, O. and R. Choquet (2010). Individual heterogeneity in studies on marked animals using numerical integration: capture–recapture mixed models. Ecology, 91: 951-957.
  19. Pradel R., Choquet R., Lima M.A., Merritt J.F. and Crespin L. (2010). Estimating population growth rate from capture-recapture data in presence of capture heterogeneity. Jabes,15(2), 248-258
  20. Cubaynes, S., Pradel, R., Choquet, R., Duchamp, C., Gaillard, J.-M., Lebreton, J.-D., Marboutin, E., Miquel, C., Reboulet, A.-M., Poillot, C., Taberlet, P. and O. Gimenez. (2010). Importance of accounting for detection heterogeneity when estimating abundance: the case of French wolves. Conservation Biology. 24(2): 621-626
  21. Péron, G., Crochet, P.A.C., Choquet, R., Pradel, R., Lebreton, J.-D. and O. Gimenez. (2010). "Capture-recapture models with heterogeneity to study survival senescence in the wild." Oikos 119(3): 524-532. DOI:10.1111/j.1600-0706.2009.017882.x
  22. Balkiz, O., A. Béchet, Rouan, L., Choquet, R., Germain, C., Amat, J.A., Rendon-Martos, M., Baccetti, N., Nissardi, S., Ozesmi, U., Pradel, R. (2010). "Experience-dependent natal philopatry of breeding Greater flamingos." Journal of Animal Ecology. 79(5): 1045-1056
  23. Servanty Sabrina, Rémi Choquet, Éric Baubet, Serge Brandt, Jean-Michel Gaillard, Michael Schaub, Carole Toïgo, Jean-Dominique Lebreton, Mathieu Buoro, and Olivier Gimenez (2010). "Assessing compensatory vs. additive mortality using marked animals: a Bayesian state-space modeling approach" Ecology 91(7): 1916-1923.
  24. Juillet Cédric , Rémi Choquet, Gilles Gauthier, and Roger Pradel (2011). "A capture-recapture model with double-marking, live and dead encounters, and heterogeneity of reporting due to auxiliary mark loss" Jabes. 16(1): 88-104. DOI: 10.1007/s13253-010-0035-5
  25. Choquet Rémi, Viallefont Anne, Rouan Lauriane, Gaanoun Kamel, Gaillard Jean-Michel (2011). "A semi-Markov model to assess reliably survival patterns from birth to death in free-ranging populations". Methods in Ecology and Evolution. 2(4): 383-389. DOI: 10.1111/j.2041-210X.2011.00088.x
  26. Marescot, L., Pradel, R., Duchamp, C. Cubaynes, S., Marboutin, E., Choquet, R. Miquel, C. and O. Gimenez (2011). Capture-recapture population growth rate as a robust tool against detection heterogeneity for population management. Ecological Applications. 21:8, 2898-2907
  27. Bouwhuis, S., Choquet R., Sheldon, B.C., Verhulst S. (2012) "The forms and fitness cost of senescence: age-specific recapture, survival, reproduction and reproductive value in a wild bird population" American naturalist, 179(1): 15-27.
  28. Choquet R. and Cole D. (2012) "A Hybrid Symbolic-Numerical Method for Determining Model Structure" Mathematical Biosciences 236, pp. 117-125 DOI: 10.1016/j.mbs.2012.02.002
  29. Guillaume Péron, Yves Ferrand, Rémi Choquet, Roger Pradel, François Gossmann, Claudine Bastat, Michel Guénézan, Isabelle Bauthian, Romain Julliard and Olivier Gimenez. (2012) "Spatial heterogeneity in mortality and its impact on the population dynamics of Eurasian woodcocks" Population ecology, 54(2): 305-312 DOI: 10.1007/s10144-012-0309-6
  30. Olivier Duriez, Bruno J. Ens, Rémi Choquet, Roger Pradel, Marcel Klaassen. (2012) "Comparing the seasonal survival of resident and migratory oystercatchers: carry-over effects of habitat quality and weather conditions" Oilkos, 121: 862-873
  31. Lebreton J.D., Choquet R., Gimenez O. (2012) "Simple estimation and test procedures in capture-mark-recapture mixed models" Biometrics, 68: 494-503.
  32. Véran S., Devin Kleiner, Choquet Rémi, Collazo Jaime and James Nichols (2012) "Modeling habitat dynamics accounting for possible misclassification." Landscape Ecology, 27: 943-956.
  33. Chambert, Thierry; Staszewski, Vincent; Lobato, Elisa; Choquet, Rémi; Carrie, Cécile; McCoy, Karen; Tveraa, Torkild; Boulinier, Thierry (2012) "Exposure of Black-legged kittiwakes to Lyme disease spirochetes: dynamics of the immune status of adult hosts and effects on their survival." Journal of Animal Ecology, 81: 986-995.
  34. Olivier Gimenez, Jean-Dominique Lebreton, Jean-Michel Gaillard, Rémi Choquet, and Roger Pradel (2012) "Estimating demographic parameters using hidden process dynamic models." Theoretical Population Biology. 82: 307-316
  35. Pradel, R., Choquet, R., Bechet, A. (2012) "Breeding Experience Might Be a Major Determinant of Breeding Probability in Long-lived Species: the Case of the Greater Flamingo." PLos ONE. 7(12): e51016. doi:10.1371/journal.pone.005101
  36. Juillet, C., Choquet, R., Gauthier, G., Lefebvre, J. & Pradel, R. (2012) "Carry-over effects of spring hunt and climate on recruitment to the natal colony in a migratory species." Journal of Applied Ecology, 49 (6): 1237-1246
  37. Choquet, R., Guédon, Y., Besnard, A., Guillemain, M., Pradel, R. (2013) "Estimating Stop over Duration in presence of trap-effects." Ecological Modelling, 250: 111-118
  38. Bellan, S., Gimenez, O., Choquet, R., Getz, W. (2013) "A Hierarchical Distance Sampling Approach to Estimating Mortality Rates from Opportunistic Carcass Surveillance Data." Methods in Ecology and Evolution. 4: 361-369
  39. Choquet, R., Sanz-Aguilar, A. Doligez, B., Nogué, E., Pradel, R., Gustafsson, L., Gimenez, O. (2013) "Estimating Demographic Parameters in the Wild with Dependence among Individuals within Cluster." Methods in Ecology and Evolution. 4: 474-482
  40. Choquet R., Carrié C., Chambert T., Boulinier T. (2013) "Estimating transitions between states using measurements with imperfect detection: application to serological data." Ecology, 94(10): 2160-2165
  41. Freville, H., Choquet R., Pradel, R., Cheptou P.O. (2013) "Inferring seed bank from hidden Markov models: new insights into metapopulation dynamics in plants. Journal of Ecology. 101(6): 1572-1580
  42. Culina, A., Lachish, S., Pradel, R., Choquet, R., Sheldon B.C. (2013) "A multievent approach to estimating pair fidelity and heterogeneity in state transitions" Ecology and Evolution. 3(13): 4326-4338
  43. Frederiksen, M., Lebreton, J.-D., Pradel, R., Choquet, R., Gimenez, O. (2014) "Identifying links between vital rates and environment: a toolbox for the applied ecologist" Journal of Applied Ecology. 51(1): 71-81  
  44. Gimenez, O., L. Blanc, A. Besnard, R. Pradel, P. F. Doherty, E. Marboutin, and R. Choquet. (2014). Fitting occupancy models with E-SURGE: hidden Markov modelling of presence-absence data. Methods in Ecology and Evolution 5(6): 592-597.
  45. Koons, D. N., M. Gamelon, J. M. Gaillard, L. M. Aubry, R. F. Rockwell, F. Klein, R. Choquet, and O. Gimenez. (2014). Methods for studying cause-specific senescence in the wild. Methods in Ecology and Evolution 5(9): 924-933.
  46. Monti, F., J. M. Dominici, R. Choquet, O. Duriez, G. Sammuri, and A. Sforzi. (2014). The Osprey reintroduction in Central Italy: dispersal, survival and first breeding data. Bird Study 61(4) :465-473.
  47. Gamelon, M., S. Focardi, J. M. Gaillard, O. Gimenez, C. Bonenfant, B. Franzetti, R. Choquet, F. Ronchi, E. Baubet, and J. F. Lemaitre. (2014). Do age-specific survival patterns of wild boar fit current evolutionary theories of senescence? Evolution 68(12): 3636-3643.
  48. Péron, G., J. M. Gaillard, C. Barbraud, C. Bonenfant, A. Charmantier, R. Choquet, T. Coulson, V. Grosbois, A. Loison, G. Marzolin, N. Owen-Smith, D. Pardo, F. Plard, R. Pradel, C. Toigo, and O. Gimenez. (2016). Evidence of reduced individual heterogeneity in adult survival of long-lived species. Evolution 70:2909-2914.
  49. Guérin, S., D. Picard, R. Choquet, and A. Besnard. 2017. Advances in methods for estimating stopover duration for migratory species using capture–recapture data. Ecological Applications 27:1594-1604.
  50. Manna, F., R. Pradel, R. Choquet, H. Fréville, and P. O. Cheptou. (2017). Disentangling the role of seed bank and dispersal in plant metapopulation dynamics using patch occupancy surveys. Ecology, 98: 2662-2672
  51. Hoenig, J. M., M. L. Groner, M. W. Smith, W. K. Vogelbein, D. M. Taylor, D. F. Landers, J. T. Swenarton, D. T. Gauthier, P. Sadler, M. A. Matsche, A. N. Haines, H. J. Small, R. Pradel, R. Choquet, and J. D. Shields. 2017. Impact of disease on the survival of three commercially fished species. Ecological Applications 27:2116-2127.
  52. Choquet, R., A. Garnier, E. Awuve, and A. Besnard. (2017). Transient state estimation using continuous-time processes applied to opportunistic capture-recapture data. Ecological Modelling 361:157-163.
  53. Louvrier, J., C. Duchamp, V. Lauret, E. Marboutin, S. Cubaynes, R. Choquet, C. Miquel, and O. Gimenez. (2018). Mapping and explaining wolf recolonization in France using dynamic occupancy models and opportunistic data. Ecography 41:647-660.
  54. Choquet, R. (2018). Markov-modulated Poisson processes as a new framework for analyzing capture-recapture data. Methods in Ecology and Evolution. 9:929-935.
  55. Groner, M. L., Hoenig, J. M., Pradel, R., Choquet, R., Vogelbein, W. K., Gauthier, D. T., & Friedrichs, M. A. M. (2018). Dermal mycobacteriosis and warming sea surface temperatures are associated with elevated mortality of striped bass in Chesapeake Bay. Ecology and Evolution, 8(18), 9384–9397.
  56. Ponchon, A., Choquet, R., Tornos, J., McCoy, K. D., Tveraa, T. and Boulinier, T. (2018). Survival estimates strongly depend on capture–recapture designs in a disturbed environment inducing dispersal. – Ecography doi: 10.1111/ecog.03334
  57. Pluntz, M., Coz, S. Le, Peyrard, N., Pradel, R., Choquet, R., & Cheptou, P.-O. (2018). A general method for estimating seed dormancy and colonisation in annual plants from the observation of existing flora. Ecology Letters, 21(9), 1311–1318.
  58. Bancila, R. I., R. Pradel, R. Choquet, R. Plaiasu, and O. Gimenez. (2018) Using temporary emigration to inform movement behaviour of cave-dwelling invertebrates: a case study of a cave harvestman species. Ecological Entomology. 43(5) DOI: 10.1111/een.12645
  59. Gimenez O, Lebreton J‐D, Choquet R, Pradel R. R2ucare: An R package to perform goodness‐of‐fit tests for capture–recapture modelsMethods Ecol Evol. (2018);9:1749–1754.
  60. Romain Pigeault, Camille-Sophie Cozzarolo; Rémi Choquet; Marie Strehler; Tania Jenkins; Jessica Delhaye; Lucile Bovet; Jérome Wassef; Olivier Glaizot; Philippe Christe. Haemosporidian infection and co-infection affect host survival and reproduction in wild populations of great tits.(2018). International Journal for Parasitology, 48(14), 1079–1087.
  61. Gianuca, Dimas; Votier, Steve; Pardo, Deborah; Wood, Andrew; Sherley, Richard; Ireland, Louise; Choquet, Remi; Pradel, Roger; Townley, Stuart; Forcada, Jaume; Tuck, Geoff; Phillips, Richard. (2019)  Sex-specific effects of fisheries and climate on the demography of sexually dimorphic seabirds. Journal of Animal Ecology, 88(9), 1366–1378.
  62. Françoise Amélineau, David Gremillet, Ann MA Harding, Wojciech Walkusz, Rémi Choquet, and Jérôme Fort. (2019) Arctic climate change and pollution impact little auk foraging and fitness – insights from a long-term integrative study in East Greenland. Scientific Reports, 9(1), 1014.
  63. Bergès, M., Choquet, R., & Bonadonna, F. (2019). Impact of long-term behavioural studies in the wild: the blue petrel, Halobaena caerulea, case at Kerguelen. Animal Behaviour, 151, 53–65.
  64. Tjørnløv, R. S., Pradel, R., Choquet, R., Christensen, T. K., & Frederiksen, M. (2019). Consequences of past and present harvest management in a declining flyway population of common eiders Somateria mollissima. Ecology and Evolution, ece3.5707.
  65. Descamps S, Merkel B, Strøm H, Choquet R and others (2020) Sharing wintering grounds does not synchronize annual survival in a high Arctic seabird, the little Auk. Mar Ecol Prog Ser :SEAav1.
  66. Rataud, A., Dupraz, M., Toty, C., Blanchon, T., Vittecoq, M., Choquet, R., & McCoy, K. D. (2020). Evaluating Functional Dispersal in a Nest Ectoparasite and Its Eco-Epidemiological Implications. Frontiers in veterinary science, 7, 570157.
  67. Tavecchia, Giacomo & Gimenez, O. & Choquet, R. & Rotger, Andreu & Oro, Daniel & Tenan, Simone & Sanz-Aguilar, Ana. (2021). The trap of hidden processes: Why ‘quick & dirty’ methods to estimate mortality are not always good. A comment to De Pascalis et al. (2020). Biological Conservation. 256. 109057.
  68. Rousseau J, Nakamura M, Rio-Maior H, Álvares F, Choquet R, Madeira de Carvalho L, Godinho R, Santos N. Non-Invasive Molecular Survey of Sarcoptic Mange in Wildlife: Diagnostic Performance in Wolf Faecal Samples Evaluated by Multi-Event Capture–Recapture Models. Pathogens. 2021; 10(2):243.

Proceedings with lecture committee

  1. Gimenez O.,A. Viallefont, E.A. Catchpole, R. Choquet and B.J.T. Morgan (2004). "Methods for investigating parameter redundancy". Animal Biodiversity and Conservation, 27(1): 561-572.
  2. Choquet R., A.-M. Reboulet, R. Pradel, O. Gimenez J.-D. Lebreton. (2004). M-SURGE: new software specifically designed for multistate capture-recapture models. Animal Biodiversity and Conservation 27(1): 207-215.
  3. Choquet, R., Rouan, L., Pradel, R. (2009). Program E-SURGE: a software application for fitting Multievent models. Series: Environmental and Ecological Statistics , Vol. 3 Thomson, David L.; Cooch, Evan G.; Conroy, Michael J. (Eds.) p 845-865
  4. Chambert, T., D. Pardo, R. Choquet, V. Staszewski, K. D. McCoy, T. Tveraa and T. Boulinier. (2012). "Heterogeneity in detection probability along the breeding season in Black-legged Kittiwakes: implications for sampling design " Journal of Ornithology. 152 (suppl 2): 371-380. DOI: 10.1007/s10336-010-0542-8
  5. Choquet, R. and O. Gimenez (2012). "Towards built-in capture-recapture mixed models in program E-SURGE". Journal of Ornithology. 152 (suppl 2): 625-639. DOI: 10.1007/s10336-010-0613-x
  6. Lorentzen, E., R. Choquet, H. Steen. (2012) "Modelling state uncertainty with photo series data for the estimation of breeding success in a cliff-nesting seabird". Journal of Ornithology. 152 (suppl 2): 477-483. DOI: 10.1007/s10336-011-0723-0
  7. Choquet, R., A. Béchet, and Y. Guédon. (2014). Applications of hidden hybrid Markov/semi-Markov models: from stopover duration to breeding success dynamics. Ecology and Evolution 4(6): 817-826.
  8. Cole, D. J., B. J. T. Morgan, R. S. McCrea, R. Pradel, O. Gimenez, and R. Choquet. (2014). Does your species have memory? Analyzing capture-recapture data with memory models. Ecology and Evolution 4(11): 2124-2133.


  1. Choquet R. and P. Leyland (1995). "Viscous flow computations on the connection machine by a finite element Petrov-Galerkin scheme". Parallel Computational Fluid Dynamics - New Trends and Advances. p 421-428. Editors: A. Ecer, J.Hauser, P.Leca and J.Périaux.
  2. Choquet R. (1995). "A Krylov preconditioner used across the time iterations". Proceeding pour ICFD 95, 2-6 Avril 1995, Oxford.
  3. Bomholt L., R. Choquet, P.Leyland (1992). Finite Element Solvers using Data-Parallel. In Numerical Methods in Engineering 92. C.Hirsch, O. Zienkiewiez, E. Onate. Elsevier Science Publishers. B.V. 1992, p 329-334.
  4. Choquet R., F. Guerinoni, M. Rudgyard (1995). Towards Modular CFD using the CERFACS Parallel Utilities. Proceeding for Parallel CFD'95, 26-28 Juin 1995, Pasadena.
  5. Balkiz, O., Béchet, A., Rouan, L., Choquet, R., Germain, C., Amat, J.A., Rendon-Martos, M., Baccetti, N. Ozesmi, U. and Pradel, R. (2009) Metapopulation Dynamics of the Greater Flamingo Phoenicopterus roseus in the Mediterranean: Implications for conservation. Proceedings of the IVth international workshop on the Greater Flamingo in the Mediterranean region and northwest Africa. Flamingo, special publication 1, 12-16.
  6. Rouan, L., S. Cubaynes, C. Duchamp, C. Miquel, A.-M. Reboulet, O. Gimenez, J.-D. Lebreton, R. Choquet, and R. Pradel. (2013). Modèles de mélange en capture-recapture. Pages 265-272 in J.-J. Droesbeke, G. Saporta, and C. Thomas-Agnan, editors. Modèles à variables latentes et modèles de mélange. Technip, Paris, France.


  1. Choquet R., R. Pradel (2000). Program SODA: For estimating elaborate quantities. Euring
  2. Rivalan P., R. Choquet, J.-P. Briane, M. Godfrey, M. Girondot, and A.-C. Prévot-Julliard (2002). Survival rate estimates in sea turtle with variable inter-nesting intervals: New Statistical Modelling of Capture-Recapture Data. 22st Annual Symposium on Sea Turtle Biology and Conservation. 4-7 April. Miami, USA.
  3. Rivalan P., R. Pradel, R. Choquet, J.-P. Briane, M. Girondot & A.C. Prevot-Julliard (2003). "Breeding cycles and reproductive investment: the case of the Leatherback sea turtle". Euring, Radolfzell, Germany.
  4. Atkinson P., Choquet R., Frederiksen M., Pradel R., Rehfisch M. (2007) A New Approach to Estimating Turnover. EBCC Conference, Chiavenna, Italy.
  5. Choquet R., Carrié, C., Chambert, T., Boulinier, T. (2012), Estimating transitions between classified states using non discrete measures with imperfect detection: Application to longitudinal serological data. ISEC Conference, Oslo, Norway
  6. Choquet R., Béchet A., Guédon, Y. (2013), Applications of hidden hybrid Markov/semi-Markov models: from stop-over duration to breeding success dynamics. Euring Conference, Athens, USA
  7. Rémi Choquet, Jean-Baptiste Rumeau, Aurélien Besnard, Alexandre Garnier, Anne Loison, Jean-Paul Crampe. Non-homogeneous Markov modulated Poisson processes for capture-recapture data. (2018). ISEC Conference, St Andrews.


  1. Choquet R. .(1993) Résolution d'une formulation élements finis par Newton / GMRES sur la machine aux connections. January 1993. T-93-3.
  2. Choquet R. (1994). Accelération de l'algorithme de Newton-GMRES pour les équations de Navier-Stokes.Rapport de recherche No 831, IRISA, Juin 1994.
  3. Choquet R. (1995). A matrix-free preconditioner applied to CFD. Rapport de recherche No 940, IRISA, Juin 1995.
  4. Choquet R. (1997). Amélioration de l'algorithmique pour un code de traitement automatique des relevés géo-acoustiques des fonds marins. Rapport de fin de contrat, IRISA, Décembre 1997.
  5. Choquet R., Pradel R. (2004). Compute yourself the number of identifiable parameters of multistate capture-recapture models.
  6. Atkinson P., Choquet R., Frederiksen M., Gillings S., Pradel R. and Rehfisch M. (2007). Towards developing thresholds for waterbirds that take into account turnover. BTO Research Report No. 463
  7. Choquet, R. and Cole, D.J. (2010) Symbolic/Numerical methods for identifiability, UKC/SMSAS/10/016
  8. Genovart, M., Oro, D., Choquet, R., and Pradel, R., “Informed recruitment or the importance of taking stock”, arXiv e-prints, 2020.


  1. Rehfisch, M., Atkinson P., Choquet R., Drewitt A., Fredericksen M., Pradel R. (2007). Here Today, gone tomorrow. BTO News. November-December.
  2. Choquet, R., (2013) Une brève dans Mathématiques de la planète Terre.
  3. Choquet, R., Lebreton, J.D., (2013) "Populations animales : un problème de taille" TDC no1062 Les mathématiques de la Terre - Etude de documents finalisée
  4. Pradel,R., Choquet R., Béchet A. (2018) Le comportement explique la démographie. "Systèmes complexes de la biologie aux territoires" dossier agropolis no 23.


R. Choquet, Etude de la méthode de Newton-GMRES. Application aux équations de Navier-Stokes compressibles. Thesis No 1499, Université de Rennes I, Décembre 1995.


CV Rémi Choquet


1999              Recruté au CNRS, dans l'équipe Biométrie et Biologie des populations du CEFE.
1998-1999   Ingénieur expert à l'ENS-LYON au sein du projet LIP.
1997-1998   Post-doc à l'ONERA.
1997-            Ingénieur expert à l'IRISA.
1993-1995   Thèse en calcul scientifique à l'University of Rennes I, sous la direction de Jocelyne Erhel.
1991-1993   Assistant à l'IMHEF, EPFL(Suisse).
1991-           D.E.A de mathématiques appliqués et magistère de mathématiques, Université de Rennes I.


Logiciels en dynamique des populations
(Estimation de paramètres démographiques à partir d'individus marqués)

Mots-clés : logiciel, capture-recapture, statistique, modèle, tests d'adéquation, estimation de paramètres démographiques, multi-états, multi-évènements, chaine de Markov cachée.


----------------------------------------- STEP 1 ------------------------------------------

 Download the libraries V 9 needed by E-SURGE V2.2.3 and U-CARE V 3.3.0

Matlab LIBRAIRIES Version 9-6 (Windows 64)

                                             available also from the MATLAB libraries site

                                       ------------------------------------------ STEP 2 ------------------------------------------

                                      Download  versions E-SURGE V 2.2.3 and U-CARE V 3.3.0

VERSION E-SURGE 2-2-3U-CARE 3-3-0 or

 (incorporating R to E-SURGE, R2ESURGE.pdf, ANSWERS2019.docx




E-SURGE for multiEvent SURvival Generalized Estimation
A general software for multievent capture-recapture models.

CHOQUET, R., ROUAN, L., PRADEL, R. (2009). Program E-SURGE: a software application for fitting Multievent models Series: Environmental and Ecological Statistics , Vol. 3 Thomson, David L.; Cooch, Evan G.; Conroy, Michael J. (Eds.) p 845-865

CHOQUET, R., NOGUE, E. (2011). E-SURGE 1.8 User’s Manual. CEFE, Montpellier, France.

Read me, News et FAQ



M-SURGE for Multistate SURvival Generalized Estimation
A general software for multistate capture-recapture models.

M-SURGE: new software specifically designed for multistate capture-recapture models.
Animal Biodiversity and Conservation 27(1): 207-215.

M-SURGE 1.8 User’s Manual CEFE, UMR 5175, CNRS, Montpellier, France. (made with Word)
(improved version with hyperlink made with Latex )


U-CARE for Utilities for CApture-REcapture
A software for goodness-of-fit test of a general model
(including :multistate JollyMoVe and Arnason-Schwarz models)

U-CARE: Utilities for performing goodness of fit tests and manipulating CApture-REcapture data. Ecography. 32:1071-1074.

U-CARE 3.3 User's Manual. CEFE, UMR 5175, CNRS, Montpellier, France
to ask technical questions
C.M.R. Data
data sets to test software