{
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  "Package": "MIC",
  "Title": "Analysis of Antimicrobial Minimum Inhibitory Concentration Data",
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  "Authors@R": "person(\"Alessandro\", \"Gerada\", , \"alessandro.gerada2@liverpool.ac.uk\", role = c(\"aut\", \"cre\", \"cph\"),\ncomment = c(ORCID = \"0000-0002-6743-4271\"))",
  "Description": "Analyse, plot, and tabulate antimicrobial minimum\ninhibitory concentration (MIC) data. Validate the results of an\nMIC experiment by comparing observed MIC values to a gold\nstandard assay, in line with standards from the International\nOrganization for Standardization (2021)\n<https://www.iso.org/standard/79377.html>.",
  "License": "GPL (>= 3)",
  "Encoding": "UTF-8",
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  "Packaged": {
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    "User": "root"
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  "Author": "Alessandro Gerada [aut, cre, cph] (ORCID:\n<https://orcid.org/0000-0002-6743-4271>)",
  "Maintainer": "Alessandro Gerada <alessandro.gerada2@liverpool.ac.uk>",
  "Repository": "https://cran.r-universe.dev",
  "Date/Publication": "2026-07-21 11:10:28 UTC",
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    "bias",
    "clean_raw_mic",
    "compare_mic",
    "compare_sir",
    "essential_agreement",
    "fill_dilution_levels",
    "force_mic",
    "get_mic",
    "mic_censor",
    "mic_r_breakpoint",
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    "mic_s_breakpoint",
    "mic_uncensor",
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    "qc_on_target",
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  "_datasets": [
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      "name": "ecoffs",
      "title": "ECOFF data",
      "object": "ecoffs",
      "class": [
        "tbl_df",
        "tbl",
        "data.frame"
      ],
      "fields": [
        "organism",
        "antibiotic",
        "0.002",
        "0.004",
        "0.008",
        "0.016",
        "0.03",
        "0.06",
        "0.125",
        "0.25",
        "0.5",
        "1",
        "2",
        "4",
        "8",
        "16",
        "32",
        "64",
        "128",
        "256",
        "512",
        "Distributions",
        "Observations",
        "(T)ECOFF",
        "Confidence interval"
      ],
      "rows": 85,
      "table": true,
      "tojson": true
    },
    {
      "name": "example_mics",
      "title": "Example MIC data",
      "object": "example_mics",
      "class": [
        "data.frame"
      ],
      "fields": [
        "gs",
        "test",
        "mo",
        "ab"
      ],
      "rows": 300,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "as.sir_vectorised",
      "title": "Convert MIC or Disk Diffusion to SIR, vectorised over antimicrobials",
      "topics": [
        "as.sir_vectorised"
      ]
    },
    {
      "page": "bias",
      "title": "Calculate MIC bias",
      "topics": [
        "bias"
      ]
    },
    {
      "page": "clean_raw_mic",
      "title": "Clean up raw MIC for use as a feature",
      "topics": [
        "clean_raw_mic"
      ]
    },
    {
      "page": "compare_mic",
      "title": "Compare and validate MIC values",
      "topics": [
        "compare_mic"
      ]
    },
    {
      "page": "compare_sir",
      "title": "Compare SIR results and generate categorical agreement",
      "topics": [
        "compare_sir"
      ]
    },
    {
      "page": "droplevels.mic_validation",
      "title": "Droplevels for MIC validation object",
      "topics": [
        "droplevels.mic_validation"
      ]
    },
    {
      "page": "ecoffs",
      "title": "ECOFF data",
      "topics": [
        "ecoffs"
      ]
    },
    {
      "page": "essential_agreement",
      "title": "Essential agreement for MIC validation",
      "topics": [
        "essential_agreement"
      ]
    },
    {
      "page": "example_mics",
      "title": "Example MIC data",
      "topics": [
        "example_mics"
      ]
    },
    {
      "page": "fill_dilution_levels",
      "title": "Fill MIC dilution levels",
      "topics": [
        "fill_dilution_levels"
      ]
    },
    {
      "page": "force_mic",
      "title": "Force MIC-like into MIC-compatible format",
      "topics": [
        "force_mic"
      ]
    },
    {
      "page": "get_mic",
      "title": "Get MIC meta-data from feature database",
      "topics": [
        "get_mic"
      ]
    },
    {
      "page": "mic_censor",
      "title": "Censor MIC values",
      "topics": [
        "mic_censor"
      ]
    },
    {
      "page": "mic_r_breakpoint",
      "title": "R breakpoint for MIC",
      "topics": [
        "mic_r_breakpoint"
      ]
    },
    {
      "page": "mic_range",
      "title": "Generate dilution series",
      "topics": [
        "mic_range"
      ]
    },
    {
      "page": "mic_s_breakpoint",
      "title": "S breakpoint for MIC",
      "topics": [
        "mic_s_breakpoint"
      ]
    },
    {
      "page": "mic_uncensor",
      "title": "Uncensor MICs",
      "topics": [
        "mic_uncensor"
      ]
    },
    {
      "page": "plot.mic_validation",
      "title": "Plot MIC validation results",
      "topics": [
        "plot.mic_validation"
      ]
    },
    {
      "page": "print.mic_validation",
      "title": "Print MIC validation object",
      "topics": [
        "print.mic_validation"
      ]
    },
    {
      "page": "print.mic_validation_summary",
      "title": "Print MIC validation summary",
      "topics": [
        "print.mic_validation_summary"
      ]
    },
    {
      "page": "qc_in_range",
      "title": "Check that MIC is within QC range",
      "topics": [
        "qc_in_range"
      ]
    },
    {
      "page": "qc_on_target",
      "title": "Check that QC measurement is at the required target *[Experimental]*",
      "topics": [
        "qc_on_target"
      ]
    },
    {
      "page": "standardise_mic",
      "title": "Standardise MIC to control strain *[Experimental]*",
      "topics": [
        "standardise_mic"
      ]
    },
    {
      "page": "subset.mic_validation",
      "title": "Subset MIC validation object",
      "topics": [
        "subset.mic_validation"
      ]
    },
    {
      "page": "summary.mic_validation",
      "title": "Summary of MIC validation results",
      "topics": [
        "summary.mic_validation"
      ]
    },
    {
      "page": "table",
      "title": "Table",
      "topics": [
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        "table.default",
        "table.mic_validation"
      ]
    }
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