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  "Title": "Statistical and Viz Tools for Vector-Borne Diseases in Colombia",
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  "Description": "Provides statistical and visualization tools for the\nanalysis of demographic indicators, and spatio-temporal\nbehavior and characterization of outbreaks of vector-borne\ndiseases (VBDs) in Colombia. It implements travel times\nestimated in Bravo-Vega C., Santos-Vega M., & Cordovez J.M.\n(2022), and the endemic channel method (Bortman, M.  (1999)\n<https://iris.paho.org/handle/10665.2/8562>).",
  "License": "MIT + file LICENSE",
  "URL": "https://epiverse-trace.github.io/epiCo/,\nhttps://github.com/epiverse-trace/epiCo",
  "BugReports": "https://github.com/epiverse-trace/epiCo/issues",
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  "Repository": "https://epiverse-trace.r-universe.dev",
  "Date/Publication": "2025-04-29 16:09:50 UTC",
  "RemoteUrl": "https://github.com/epiverse-trace/epiCo",
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  "NeedsCompilation": "no",
  "Packaged": {
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    "User": "root"
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  "Author": "Juan D. Umaña [aut, cre, cph] (ORCID:\n<https://orcid.org/0000-0003-0316-6164>),\nJuan Montenegro-Torres [aut] (ORCID:\n<https://orcid.org/0000-0003-2755-4743>),\nJulian Otero [aut] (ORCID: <https://orcid.org/0009-0006-0429-7747>),\nHugo Gruson [ctb] (ORCID: <https://orcid.org/0000-0002-4094-1476>)",
  "Maintainer": "Juan D. Umaña <jd.umana10@uniandes.edu.co>",
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  "_user": "epiverse-trace",
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  "_created": "2026-05-21T06:18:47.000Z",
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    "epi_calendar",
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    "geometric_sd",
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      ],
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        "major_label",
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      "page": "age_risk",
      "title": "Returns the specific rates associated with being infected given age and sex",
      "topics": [
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      ]
    },
    {
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      "title": "Provides the sociological description of ethnicities in Colombia",
      "topics": [
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      "title": "Get ISCO-88 occupation labels from codes",
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      "topics": [
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      ]
    },
    {
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      "topics": [
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    },
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      "title": "Neighborhoods from real travel distances in Colombia",
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