{
  "_id": "6a1f2e5eb401979e73426a63",
  "Package": "biodosetools",
  "Title": "'shiny' Application for Biological Dosimetry",
  "Version": "3.7.2",
  "Authors@R": "c(person(given = \"Alfredo\",\nfamily = \"Hernández\",\nrole = c(\"aut\"),\nemail = \"aldomann.designs@gmail.com\",\ncomment = c(ORCID = \"0000-0002-2660-4545\")),\nperson(given = \"Anna\",\nfamily = \"Frances-Abellan\",\nrole = c(\"aut\", \"cre\"),\nemail = \"anna.frances@uab.cat\",\ncomment = c(ORCID = \"0000-0003-4738-1712\")),\nperson(given = \"David\",\nfamily = \"Endesfelder\",\nrole = c(\"aut\"),\nemail = \"dendesfelder@bfs.de\"),\nperson(given = \"Pere\",\nfamily = \"Puig\",\nrole = c(\"aut\"),\nemail = \"ppuig@mat.uab.cat\",\ncomment = c(ORCID = \"0000-0002-6607-9642\")))",
  "Description": "A tool to perform all different statistical tests and\ncalculations needed by Biological dosimetry Laboratories.\nDetailed documentation is available in\n<https://biodosetools-team.github.io/documentation/>.",
  "License": "GPL-3",
  "URL": "https://biodosetools-team.github.io/biodosetools/,\nhttps://github.com/biodosetools-team/biodosetools/",
  "BugReports": "https://github.com/biodosetools-team/biodosetools/issues/",
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  "Repository": "https://biodosetools-team.r-universe.dev",
  "Date/Publication": "2025-12-16 16:56:10 UTC",
  "RemoteUrl": "https://github.com/biodosetools-team/biodosetools",
  "RemoteRef": "HEAD",
  "RemoteSha": "e4fa67e8bd311015df1443d2bea5400089834e29",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-15 09:29:42 UTC",
    "User": "root"
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  "Author": "Alfredo Hernández [aut] (ORCID:\n<https://orcid.org/0000-0002-2660-4545>),\nAnna Frances-Abellan [aut, cre] (ORCID:\n<https://orcid.org/0000-0003-4738-1712>),\nDavid Endesfelder [aut],\nPere Puig [aut] (ORCID: <https://orcid.org/0000-0002-6607-9642>)",
  "Maintainer": "Anna Frances-Abellan <anna.frances@uab.cat>",
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  "_user": "biodosetools-team",
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  "_filesize": 5940796,
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  "_created": "2026-05-15T09:29:42.000Z",
  "_published": "2026-06-02T19:26:22.824Z",
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  "_tags": [
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      "name": "v3.7.1",
      "date": "2025-10-29"
    },
    {
      "name": "v3.7.2",
      "date": "2025-12-16"
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  ],
  "_topics": [
    "biological-data",
    "dosimetry",
    "shiny-app"
  ],
  "_stars": 5,
  "_contributors": [
    {
      "user": "aldomann",
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    },
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  "_userbio": {
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    "type": "organization",
    "name": "Biodose Tools Team",
    "description": "We are developing an R Shiny app to help professionals and researchers on biological dosimetry to perform several computations and statistical analyses."
  },
  "_downloads": {
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  "_rbuild": "4.6.0",
  "_assets": [
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    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
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  "_homeurl": "https://github.com/biodosetools-team/biodosetools",
  "_realowner": "biodosetools-team",
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  "_releases": [
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      "date": "2022-01-27"
    },
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    },
    {
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    },
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    },
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  ],
  "_exports": [
    "%>%",
    "bar_plots",
    "calc.zValue.new",
    "calculate_aberr_table",
    "calculate_characteristic_limits",
    "calculate_genome_factor",
    "calculate_trans_rate_manual",
    "calculate_trans_rate_sigurdson",
    "curves_plot",
    "DI_plot",
    "dose_boxplot",
    "estimate_hetero_mixed_poisson",
    "estimate_partial_body_dolphin",
    "estimate_whole_body_delta",
    "estimate_whole_body_merkle",
    "fit",
    "fun.estimate.criticality",
    "M_estimate",
    "plot_deviation_all",
    "plot_estimated_dose_curve",
    "plot_estimated_dose_curve_mx",
    "plot_fit_dose_curve",
    "plot_interlab_deviation",
    "plot_interlab_v2",
    "plot_triage",
    "plot_triage_interlab",
    "plot_zscore_all",
    "project_yield",
    "protracted_g_function",
    "QHampel",
    "run_app",
    "summary_curve_tables",
    "u_test_plot",
    "yield_boxplot"
  ],
  "_datasets": [
    {
      "name": "dna_content_fractions_ihgsc",
      "title": "DNA Content Fractions of Human Chromosomes (IHGSC)",
      "object": "dna_content_fractions_ihgsc",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "chromosome",
        "fraction_male",
        "fraction_female"
      ],
      "rows": 24,
      "table": true,
      "tojson": true
    },
    {
      "name": "dna_content_fractions_morton",
      "title": "DNA Content Fractions of Human Chromosomes (Morton 1991)",
      "object": "dna_content_fractions_morton",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "chromosome",
        "fraction_male",
        "fraction_female"
      ],
      "rows": 24,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "AIC_from_data",
      "title": "Calculate AIC (Akaike's 'An Information Criterion')",
      "topics": [
        "AIC_from_data"
      ]
    },
    {
      "page": "bar_plots",
      "title": "Bar plots dosimetry",
      "topics": [
        "bar_plots"
      ]
    },
    {
      "page": "calc.zValue.new",
      "title": "Calculate ZScore",
      "topics": [
        "calc.zValue.new"
      ]
    },
    {
      "page": "calculate_aberr",
      "title": "Aberration calculation functions",
      "topics": [
        "calculate_aberr",
        "calculate_aberr_disp_index",
        "calculate_aberr_mean",
        "calculate_aberr_power",
        "calculate_aberr_u_value",
        "calculate_aberr_var",
        "init_aberr_table"
      ]
    },
    {
      "page": "calculate_aberr_IRR",
      "title": "Calculate IRR (this is the same as the Odds-Ratio calculation in IAEA2011)",
      "topics": [
        "calculate_aberr_IRR"
      ]
    },
    {
      "page": "calculate_aberr_table",
      "title": "Calculate aberrations table",
      "topics": [
        "calculate_aberr_table"
      ]
    },
    {
      "page": "calculate_characteristic_limits",
      "title": "Characteristic limits function----------------",
      "topics": [
        "calculate_characteristic_limits"
      ]
    },
    {
      "page": "calculate_genome_factor",
      "title": "Calculate genomic conversion factor",
      "topics": [
        "calculate_genome_factor"
      ]
    },
    {
      "page": "calculate_model_stats",
      "title": "Calculate model statistics",
      "topics": [
        "calculate_model_stats"
      ]
    },
    {
      "page": "calculate_table",
      "title": "Calculate the characteristic limits table",
      "topics": [
        "calculate_table"
      ]
    },
    {
      "page": "calculate_trans_rate_manual",
      "title": "Calculate manual translocation rate",
      "topics": [
        "calculate_trans_rate_manual"
      ]
    },
    {
      "page": "calculate_trans_rate_sigurdson",
      "title": "Calculate Sigurdson's translocation rate",
      "topics": [
        "calculate_trans_rate_sigurdson"
      ]
    },
    {
      "page": "calculate_yield",
      "title": "Calculate yield from dose",
      "topics": [
        "calculate_yield"
      ]
    },
    {
      "page": "calculate_yield_infimum",
      "title": "Calculate theoretical yield infimum",
      "topics": [
        "calculate_yield_infimum"
      ]
    },
    {
      "page": "correct_boundary",
      "title": "Correct boundary of irradiated fractions to be bounded by 0 and 1",
      "topics": [
        "correct_boundary"
      ]
    },
    {
      "page": "correct_conf_int",
      "title": "Correct yield confidence interval",
      "topics": [
        "correct_conf_int"
      ]
    },
    {
      "page": "correct_negative_vals",
      "title": "Correct negative values",
      "topics": [
        "correct_negative_vals"
      ]
    },
    {
      "page": "correct_yield",
      "title": "Correct yields if they are below the curve",
      "topics": [
        "correct_yield"
      ]
    },
    {
      "page": "curves_plot",
      "title": "Plot curves",
      "topics": [
        "curves_plot"
      ]
    },
    {
      "page": "DI_plot",
      "title": "Dispersion index",
      "topics": [
        "DI_plot"
      ]
    },
    {
      "page": "dna_content_fractions_ihgsc",
      "title": "DNA Content Fractions of Human Chromosomes (IHGSC)",
      "topics": [
        "dna_content_fractions_ihgsc"
      ]
    },
    {
      "page": "dna_content_fractions_morton",
      "title": "DNA Content Fractions of Human Chromosomes (Morton 1991)",
      "topics": [
        "dna_content_fractions_morton"
      ]
    },
    {
      "page": "dose_boxplot",
      "title": "Boxplot dose estimates",
      "topics": [
        "dose_boxplot"
      ]
    },
    {
      "page": "dose_estimation_mx",
      "title": "Prepare data to dose estimate using mixed fields manual",
      "topics": [
        "dose_estimation_mx"
      ]
    },
    {
      "page": "estimate_hetero_mixed_poisson",
      "title": "Heterogeneous dose estimation (Mixed Poisson model)",
      "topics": [
        "estimate_hetero_mixed_poisson"
      ]
    },
    {
      "page": "estimate_partial_body_dolphin",
      "title": "Partial-body dose estimation (Dolphin's method)",
      "topics": [
        "estimate_partial_body_dolphin"
      ]
    },
    {
      "page": "estimate_whole_body_delta",
      "title": "Whole-body dose estimation (delta method)",
      "topics": [
        "estimate_whole_body_delta"
      ]
    },
    {
      "page": "estimate_whole_body_merkle",
      "title": "Whole-body dose estimation (Merkle's method)",
      "topics": [
        "estimate_whole_body_merkle"
      ]
    },
    {
      "page": "fit",
      "title": "Perform dose-effect fitting algorithm",
      "topics": [
        "fit"
      ]
    },
    {
      "page": "fit_glm_method",
      "title": "Perform GLM (Generalised Linear Model) fitting",
      "topics": [
        "fit_glm_method"
      ]
    },
    {
      "page": "fit_maxlik_method",
      "title": "Perform max-likelihood optimization fitting",
      "topics": [
        "fit_maxlik_method"
      ]
    },
    {
      "page": "fun.curve",
      "title": "Calculate curve",
      "topics": [
        "fun.curve"
      ]
    },
    {
      "page": "fun.estimate.criticality",
      "title": "Calculate absorbed dose for mixed fields exposure",
      "topics": [
        "fun.estimate.criticality"
      ]
    },
    {
      "page": "generate_plot_and_download",
      "title": "Plot at the UI and save",
      "topics": [
        "generate_plot_and_download"
      ]
    },
    {
      "page": "get_deltamethod_std_err",
      "title": "Get standard errors using delta method",
      "topics": [
        "get_deltamethod_std_err"
      ]
    },
    {
      "page": "include_help",
      "title": "Include Markdown help",
      "topics": [
        "include_help"
      ]
    },
    {
      "page": "load_manual_data",
      "title": "Load manual data",
      "topics": [
        "load_manual_data"
      ]
    },
    {
      "page": "load_rds_data",
      "title": "Load and show rds files",
      "topics": [
        "load_rds_data"
      ]
    },
    {
      "page": "load_rmd_report",
      "title": "Load RMarkdown report",
      "topics": [
        "load_rmd_report"
      ]
    },
    {
      "page": "M_estimate",
      "title": "Calculate algB",
      "topics": [
        "M_estimate"
      ]
    },
    {
      "page": "plot_deviation_all",
      "title": "Plot Deviaition from ref dose all blind samples",
      "topics": [
        "plot_deviation_all"
      ]
    },
    {
      "page": "plot_estimated_dose_curve",
      "title": "Plot dose estimation curve",
      "topics": [
        "plot_estimated_dose_curve"
      ]
    },
    {
      "page": "plot_estimated_dose_curve_mx",
      "title": "Criticality Plot",
      "topics": [
        "plot_estimated_dose_curve_mx"
      ]
    },
    {
      "page": "plot_fit_dose_curve",
      "title": "Plot fit dose curve",
      "topics": [
        "plot_fit_dose_curve"
      ]
    },
    {
      "page": "plot_interlab_deviation",
      "title": "Plot deviation",
      "topics": [
        "plot_interlab_deviation"
      ]
    },
    {
      "page": "plot_interlab_v2",
      "title": "Plot zscore v2",
      "topics": [
        "plot_interlab_v2"
      ]
    },
    {
      "page": "plot_triage",
      "title": "Plot triage",
      "topics": [
        "plot_triage"
      ]
    },
    {
      "page": "plot_triage_interlab",
      "title": "Plot triage interlab",
      "topics": [
        "plot_triage_interlab"
      ]
    },
    {
      "page": "plot_zscore_all",
      "title": "Plot Z-scores all blind samples",
      "topics": [
        "plot_zscore_all"
      ]
    },
    {
      "page": "prepare_maxlik_count_data",
      "title": "Prepare count data for max-likelihood optimization fitting",
      "topics": [
        "prepare_maxlik_count_data"
      ]
    },
    {
      "page": "project_yield",
      "title": "Project yield into dose-effect fitting curve",
      "topics": [
        "project_yield"
      ]
    },
    {
      "page": "protracted_g_function",
      "title": "Calculate protracted function G(x)",
      "topics": [
        "protracted_g_function"
      ]
    },
    {
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