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  "Title": "Tools to Manage a Parametric Function that Describes Phenology\nand More",
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    "phenology",
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    "Tagloss_model",
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    "toggle_Min_PMin"
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        "V2"
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      "table": true,
      "tojson": true
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      "table": false,
      "tojson": false
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      "tojson": false
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        "L",
        "R",
        "Date"
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      "table": true,
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      "class": [
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      "table": false,
      "tojson": false
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      "title": "Result of the fit of Leatherback nest counts",
      "object": "result_Gratiot_Flat",
      "class": [
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      "fields": [],
      "table": false,
      "tojson": false
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      "title": "Result of the fit of Leatherback nest counts",
      "object": "result_Gratiot1",
      "class": [
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        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
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      "title": "Result of the fit of Leatherback nest counts",
      "object": "result_Gratiot2",
      "class": [
        "phenology",
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": true
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    {
      "page": "phenology-package",
      "title": "Tools to Manage a Parametric Function that Describes Phenology and More",
      "topics": [
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      ]
    },
    {
      "page": "adapt_parameters",
      "title": "Extract the parameters from a set of parameters to be used with another dataset.",
      "concept": [
        "Phenology model"
      ],
      "topics": [
        "adapt_parameters"
      ]
    },
    {
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      "title": "Create a new dataset or add a timeserie to a previous dataset.",
      "concept": [
        "Phenology model"
      ],
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        "add_phenology"
      ]
    },
    {
      "page": "add_SE",
      "title": "Add standard error for a fixed parameter.",
      "concept": [
        "Phenology model"
      ],
      "topics": [
        "add_SE"
      ]
    },
    {
      "page": "AutoFitPhenology",
      "title": "Automatic fit for phenology and tests",
      "concept": [
        "Phenology model"
      ],
      "topics": [
        "AutoFitPhenology"
      ]
    },
    {
      "page": "Bayesian.remigration",
      "title": "Return a posterior remigration interval.",
      "concept": [
        "Model of Remigration Interval"
      ],
      "topics": [
        "Bayesian.remigration"
      ]
    },
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      "page": "BE_to_LBLE",
      "title": "Transform a set of parameters from Begin End to LengthB LengthE.",
      "concept": [
        "Phenology model"
      ],
      "topics": [
        "BE_to_LBLE"
      ]
    },
    {
      "page": "CI.RMU",
      "title": "Calculate the confidence interval of the results of fitRMU()",
      "concept": [
        "Fill gaps in RMU"
      ],
      "topics": [
        "CI.RMU"
      ]
    },
    {
      "page": "ECFOCF_f",
      "title": "Calculate a table of probabilities of ECF and OCF.",
      "concept": [
        "Model of Clutch Frequency"
      ],
      "topics": [
        "ECFOCF_f"
      ]
    },
    {
      "page": "ECFOCF_full",
      "title": "Calculate a table of probabilities of ECF and OCF.",
      "concept": [
        "Model of Clutch Frequency"
      ],
      "topics": [
        "ECFOCF_full"
      ]
    },
    {
      "page": "ExponentialRegression",
      "title": "Non-biased exponential regression",
      "concept": [
        "Exponential regression"
      ],
      "topics": [
        "ExponentialRegression"
      ]
    },
    {
      "page": "extract_result",
      "title": "Extract the set of parameters from a result object.",
      "concept": [
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        "extract_result"
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    {
      "page": "fit_phenology",
      "title": "Fit the phenology parameters to timeseries of counts.",
      "concept": [
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        "fit_phenology"
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    },
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      "page": "fitCF",
      "title": "Fit a model of Clutch Frequency for marine turtles.",
      "concept": [
        "Model of Clutch Frequency"
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        "fitCF"
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    },
    {
      "page": "fitCF_MHmcmc",
      "title": "Run the Metropolis-Hastings algorithm for ECFOCF data",
      "concept": [
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      "topics": [
        "fitCF_MHmcmc"
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      "page": "fitCF_MHmcmc_p",
      "title": "Generate set of parameters to be used with fitCF_MHmcmc()",
      "concept": [
        "Model of Clutch Frequency"
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      "topics": [
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      "page": "fitRMU",
      "title": "Adjust incomplete timeseries with various constraints.",
      "concept": [
        "Fill gaps in RMU"
      ],
      "topics": [
        "fitRMU"
      ]
    },
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      "page": "fitRMU_MHmcmc",
      "title": "Run the Metropolis-Hastings algorithm for RMU.data",
      "concept": [
        "Fill gaps in RMU"
      ],
      "topics": [
        "fitRMU_MHmcmc"
      ]
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    {
      "page": "fitRMU_MHmcmc_p",
      "title": "Generates set of parameters to be used with fitRMU_MHmcmc()",
      "concept": [
        "Fill gaps in RMU"
      ],
      "topics": [
        "fitRMU_MHmcmc_p"
      ]
    },
    {
      "page": "fixed.parameters0",
      "title": "Generate a set of fixed parameters for series with only 0 counts",
      "topics": [
        "fixed.parameters0"
      ]
    },
    {
      "page": "generateCF",
      "title": "Generate a set of data to test Clutch Frequency for marine turtles.",
      "concept": [
        "Model of Clutch Frequency"
      ],
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        "generateCF"
      ]
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      "page": "Gratiot",
      "title": "Leatherback nest counts from Gratiot et al. (2006) Figure 1",
      "concept": [
        "Phenology model"
      ],
      "topics": [
        "Gratiot"
      ]
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    {
      "page": "IPFit",
      "title": "Fit a model of Internesting Period for marine turtles.",
      "concept": [
        "Model of Internesting Period"
      ],
      "topics": [
        "IPFit"
      ]
    },
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      "page": "IPModel",
      "title": "Estimates the pattern of internesting intervals for a set of parameters.",
      "concept": [
        "Model of Internesting Period"
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      "topics": [
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      "page": "IPPredict",
      "title": "Predict the possible clutch number based on observed Internesting Period.",
      "concept": [
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      "page": "L_to_LBLE",
      "title": "Transform a set of parameters from Length format to LengthB LengthE",
      "concept": [
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      "topics": [
        "L_to_LBLE"
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    },
    {
      "page": "LBLE_to_BE",
      "title": "Transform a set of parameters from LengthB LengthE to Begin End.",
      "concept": [
        "Phenology model"
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      "topics": [
        "LBLE_to_BE"
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      "page": "LBLE_to_L",
      "title": "Transform a set of parameters from LengthB LengthE format to Length",
      "concept": [
        "Phenology model"
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      "topics": [
        "LBLE_to_L"
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      "page": "likelihood_phenology",
      "title": "Estimate the likelihood of timeseries based on a set of parameters.",
      "concept": [
        "Phenology model"
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      "topics": [
        "likelihood_phenology"
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    },
    {
      "page": "lnLCF",
      "title": "Calculate the -log likelihood of data within a model.",
      "concept": [
        "Model of Clutch Frequency"
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      "topics": [
        "lnLCF"
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    {
      "page": "LnRI_norm",
      "title": "Return a remigration interval.",
      "concept": [
        "Model of Remigration Interval"
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        "LnRI_norm"
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    {
      "page": "logLik.ECFOCF",
      "title": "Return Log Likelihood of a fit done using fitCF",
      "concept": [
        "Model of Clutch Frequency"
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      "topics": [
        "logLik.ECFOCF"
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      "page": "logLik.fitRMU",
      "title": "Return Log Likelihood of a fit generated by fitRMU",
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      "page": "logLik.phenology",
      "title": "Return Log Likelihood of a fit generated by fit_phenology",
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      "page": "logLik.Tagloss",
      "title": "Return Log Likelihood of a fit generated by Tagloss_fit",
      "concept": [
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      "page": "map_Gratiot",
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      "page": "map_phenology",
      "title": "Generate a likelihood map varying Phi and Delta.",
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        "Phenology model"
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      "page": "MarineTurtles_2002",
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      "concept": [
        "Phenology model"
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      "topics": [
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      "page": "MinBMinE_to_Min",
      "title": "Transform a set of parameters from MinB and MinE to Min",
      "concept": [
        "Phenology model"
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        "MinBMinE_to_Min"
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    {
      "page": "o_4p_p1p2",
      "title": "Model of tagloss based on Rivalan data",
      "concept": [
        "Model of Tag-loss"
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      "topics": [
        "o_4p_p1p2"
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    {
      "page": "outLR",
      "title": "Database of leatherback CMR in French Guiana",
      "topics": [
        "outLR"
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    {
      "page": "par_init",
      "title": "Calculate initial set of parameters.",
      "concept": [
        "Phenology model"
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    {
      "page": "Parameter_Global_Year",
      "title": "Transform a set of parameters from Year to global effect, or reverse",
      "topics": [
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    {
      "page": "phenology",
      "title": "Run a shiny application for basic functions of phenology package",
      "concept": [
        "Phenology model"
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      "topics": [
        "phenology"
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    {
      "page": "phenology_MHmcmc",
      "title": "Run the Metropolis-Hastings algorithm for data",
      "concept": [
        "Phenology model"
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      "topics": [
        "phenology_MHmcmc"
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    {
      "page": "phenology_MHmcmc_p",
      "title": "Generates set of parameters to be used with phenology_MHmcmc()",
      "concept": [
        "Phenology model"
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      "topics": [
        "phenology_MHmcmc_p"
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      "page": "phenology2fitRMU",
      "title": "Create the data to be used with fitRMU() for a summary(phenology).",
      "concept": [
        "Fill gaps for RMU",
        "Phenology model"
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      "page": "plot_delta",
      "title": "Plot a likelihood lineplot obtained after map_phenology.",
      "concept": [
        "Phenology model"
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    {
      "page": "plot_phi",
      "title": "Plot the best likelihood for fixed Phi value.",
      "concept": [
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    },
    {
      "page": "plot.ECFOCF",
      "title": "Plot a result of clutch frequency fit.",
      "concept": [
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    },
    {
      "page": "plot.fitRMU",
      "title": "Plot the synthesis of RMU fit.",
      "concept": [
        "Fill gaps in RMU"
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      "topics": [
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    },
    {
      "page": "plot.IP",
      "title": "Plot a result of Internesting Period fit or data.",
      "concept": [
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    },
    {
      "page": "plot.phenology",
      "title": "Plot the phenology from a result.",
      "concept": [
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    {
      "page": "plot.phenologymap",
      "title": "Plot a likelihood map with Delta and Phi varying.",
      "concept": [
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    },
    {
      "page": "plot.Remigration",
      "title": "Plot the remigration intervals.",
      "concept": [
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      "page": "print.phenology",
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      "page": "print.phenologymap",
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      "title": "Return an expected remigration interval.",
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