{
  "_id": "6ac8ba21de46216d5edd62c2",
  "Package": "pttstability",
  "Title": "Particle-Takens Stability",
  "Version": "1.4",
  "Authors@R": "person(\"Adam\", \"Clark\", email = \"adam.tclark@gmail.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-8843-3278\"))",
  "Description": "Includes a collection of functions presented in \"Measuring\nstability in ecological systems without static equilibria\" by\nClark et al. (2022) <doi:10.1002/ecs2.4328> in Ecosphere. These\ncan be used to estimate the parameters of a stochastic state\nspace model (i.e. a model where a time series is observed with\nerror). The goal of this package is to estimate the variability\naround a deterministic process, both in terms of observation\nerror - i.e. variability due to imperfect observations that\ndoes not influence system state - and in terms of process noise\n- i.e. stochastic variation in the actual state of the process.\nUnlike classical methods for estimating variability, this\npackage does not necessarily assume that the deterministic\nstate is fixed (i.e. a fixed-point equilibrium), meaning that\nvariability around a dynamic trajectory can be estimated (e.g.\nstochastic fluctuations during predator-prey dynamics).",
  "License": "GPL-3",
  "Encoding": "UTF-8",
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  "Author": "Adam Clark [aut, cre] (<https://orcid.org/0000-0002-8843-3278>)",
  "Maintainer": "Adam Clark <adam.tclark@gmail.com>",
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    "Date": "2026-10-09 09:31:38 UTC",
    "User": "root"
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  "Date/Publication": "2024-01-10 02:44:55 UTC",
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    "author": "Adam Clark <adam.tclark@gmail.com>",
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    "density_fun0",
    "detfun0",
    "detfun0_sin",
    "EDMfun0",
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    "S_map_Sugihara1994",
    "sampler_fun0",
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      "title": "Microcosm experimental data",
      "object": "dat",
      "class": [
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        "treatment",
        "number",
        "time",
        "Chlamydomonas.terricola"
      ],
      "rows": 1084,
      "table": true,
      "tojson": true
    }
  ],
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    {
      "page": "colfun0",
      "title": "default colonization function",
      "topics": [
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    },
    {
      "page": "dat",
      "title": "Microcosm experimental data",
      "topics": [
        "dat"
      ]
    },
    {
      "page": "density_fun0",
      "title": "Default density function for prior",
      "topics": [
        "density_fun0"
      ]
    },
    {
      "page": "detfun0",
      "title": "default deterministic function",
      "topics": [
        "detfun0"
      ]
    },
    {
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      "title": "deterministic function with time-varying carrying capacity",
      "topics": [
        "detfun0_sin"
      ]
    },
    {
      "page": "EDMfun0",
      "title": "EDM deterministic function",
      "topics": [
        "EDMfun0"
      ]
    },
    {
      "page": "getcm",
      "title": "Get rates",
      "topics": [
        "getcm"
      ]
    },
    {
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      "title": "Inverse logit",
      "topics": [
        "ilogit"
      ]
    },
    {
      "page": "indexsort",
      "title": "Sort output of particle filter",
      "topics": [
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      ]
    },
    {
      "page": "inv_fun0",
      "title": "Default inverse transormation function",
      "topics": [
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    },
    {
      "page": "likelihood_EDM_piecewise",
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      "topics": [
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      ]
    },
    {
      "page": "likelihood0",
      "title": "Default likelihood function",
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        "likelihood0"
      ]
    },
    {
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      "topics": [
        "logit"
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    },
    {
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    },
    {
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      ]
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      ]
    },
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      "topics": [
        "obsfun0"
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