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  "Title": "Support Functions used by the LIBDR LCMM Analysis",
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  "Description": "This package provides support functions frequently used by\nConstantine et al. for their paper, \"Large-scale clustering of\nlongitudinal faecal calprotectin and C-reactive protein\nprofiles in inflammatory bowel disease\". These functions are\nprimarily used to manipulate data and visualise findings.",
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  "Encoding": "UTF-8",
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  "Repository": "https://vallejosgroup.r-universe.dev",
  "Date/Publication": "2025-07-07 16:11:37 UTC",
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    "User": "root"
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  "Author": "Nathan Constantine-Cooke [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-4437-8713>),\nCatalina Vallejos [aut] (ORCID:\n<https://orcid.org/0000-0003-3638-1960>)",
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  "_created": "2026-07-02T06:24:47.000Z",
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