{
  "_id": "6ad1e9a4d3c80a766859c69f",
  "Package": "HealthMarkers",
  "Type": "Package",
  "Title": "Clinical and Metabolic Biomarker Calculation Toolkit",
  "Version": "0.1.4",
  "Authors@R": "person(given = \"Sufyan\", family = \"Suleman\",\nemail = \"sufyansuleman@hotmail.com\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0001-6612-6915\"))",
  "Description": "Computes specialist biomarker indices and risk scores for\nmetabolic, cardiovascular, renal, hepatic, inflammatory,\nfrailty, and psychiatric health assessment. Includes fasting\nand OGTT insulin sensitivity/resistance indices,\nASCVD/QRISK3/KFRE risk equations, liver and kidney markers,\nfrailty and comorbidity indices, biofluid marker panels, and\nutilities for column mapping, normalization, imputation, and\ncombined marker dispatch.",
  "License": "MIT + file LICENSE",
  "URL": "https://sufyansuleman.github.io/HealthMarkers/,\nhttps://github.com/sufyansuleman/HealthMarkers",
  "BugReports": "https://github.com/sufyansuleman/HealthMarkers/issues",
  "RdMacros": "Rdpack",
  "Encoding": "UTF-8",
  "Language": "en-US",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.2",
  "Config/testthat/edition": "3",
  "Repository": "https://sufyansuleman.r-universe.dev",
  "Date/Publication": "2026-06-18 13:38:13 UTC",
  "RemoteUrl": "https://github.com/sufyansuleman/healthmarkers",
  "RemoteRef": "HEAD",
  "RemoteSha": "ca75afe1d360541c9fc07d515abf55a2250e347d",
  "NeedsCompilation": "no",
  "Packaged": {
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    "User": "root"
  },
  "Author": "Sufyan Suleman [aut, cre] (ORCID:\n<https://orcid.org/0000-0001-6612-6915>)",
  "Maintainer": "Sufyan Suleman <sufyansuleman@hotmail.com>",
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  "_created": "2026-10-16T08:05:49.000Z",
  "_published": "2026-10-16T09:08:52.192Z",
  "_buildurl": "https://github.com/r-universe/sufyansuleman/actions/runs/38871026724",
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    "message": "updated articles for 0.1.4 verison\n",
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    "twitter": "@sufyansuleman_1",
    "description": "Genomics of Psychiatric and Metabolic traits",
    "uuid": 48591035,
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  "_assets": [
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    "extra/manual.pdf",
    "extra/NEWS.html",
    "extra/NEWS.txt",
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    "extra/readme.md",
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      "version": "0.1.4",
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  ],
  "_exports": [
    "adipo_is",
    "adiposity_sds",
    "adiposity_sds_strat",
    "all_health_markers",
    "all_insulin_indices",
    "allostatic_load",
    "alm_bmi_index",
    "asrs_score",
    "atherogenic_indices",
    "bis_score",
    "bode_index",
    "bone_markers",
    "calc_sds",
    "charlson_index",
    "ckd_stage",
    "cognitive_score",
    "corrected_calcium",
    "cvd_marker_aip",
    "cvd_marker_ldl_particle_number",
    "cvd_risk",
    "cvd_risk_ascvd",
    "cvd_risk_qrisk3",
    "cvd_risk_scorescvd",
    "cvd_risk_stroke",
    "fasting_is",
    "frailty_index",
    "frax_score",
    "gad7_score",
    "ghq12_score",
    "glycemic_markers",
    "health_summary",
    "hm_col_report",
    "hm_normalize",
    "hormone_markers",
    "iAge",
    "impute_mice",
    "impute_missforest",
    "impute_missing",
    "infer_cols",
    "inflammatory_markers",
    "isi_score",
    "k10_score",
    "k6_score",
    "kidney_failure_risk",
    "kyn_trp_ratio",
    "lipid_markers",
    "liver_fat_markers",
    "liver_markers",
    "marker_summary",
    "mdq_score",
    "metabolic_markers",
    "metabolic_risk_features",
    "metss",
    "nfl_marker",
    "normalize_vec",
    "nutrient_markers",
    "obesity_indices",
    "ogtt_is",
    "oxidative_markers",
    "phq9_score",
    "plot_frailty_age",
    "psych_dx_flags",
    "psych_markers",
    "psych_med_flags",
    "pulmo_markers",
    "renal_markers",
    "saliva_markers",
    "sarc_f_score",
    "spirometry_markers",
    "spq_score",
    "sweat_markers",
    "tracer_dxa_is",
    "urine_markers",
    "validate_inputs",
    "vitamin_d_status",
    "vitamin_markers",
    "who5_score"
  ],
  "_help": [
    {
      "page": "adipo_is",
      "title": "Adipose insulin sensitivity indices (QUICKI, VAI, LAP, TyG, TG/HDL, Belfiore)",
      "topics": [
        "adipo_is"
      ]
    },
    {
      "page": "adiposity_sds",
      "title": "Calculate standardized scores (SDS) for adiposity measures",
      "topics": [
        "adiposity_sds"
      ]
    },
    {
      "page": "adiposity_sds_strat",
      "title": "Compute sex-stratified standardized scores (SDS) for adiposity measures",
      "topics": [
        "adiposity_sds_strat"
      ]
    },
    {
      "page": "all_health_markers",
      "title": "Compute all available HealthMarkers categories",
      "topics": [
        "all_health_markers"
      ]
    },
    {
      "page": "all_insulin_indices",
      "title": "Compute insulin sensitivity/resistance panels (fasting, OGTT, adipose, tracer/DXA)",
      "topics": [
        "all_insulin_indices"
      ]
    },
    {
      "page": "allostatic_load",
      "title": "Allostatic Load Index",
      "topics": [
        "allostatic_load"
      ]
    },
    {
      "page": "alm_bmi_index",
      "title": "Appendicular Lean Mass to BMI Index",
      "topics": [
        "alm_bmi_index"
      ]
    },
    {
      "page": "asrs_score",
      "title": "Adult ADHD Self-Report Scale scoring",
      "topics": [
        "asrs_score"
      ]
    },
    {
      "page": "atherogenic_indices",
      "title": "Compute atherogenic indices",
      "topics": [
        "atherogenic_indices"
      ]
    },
    {
      "page": "bis_score",
      "title": "Barratt Impulsiveness Scale (key-driven)",
      "topics": [
        "bis_score"
      ]
    },
    {
      "page": "bode_index",
      "title": "BODE Index (BMI, Obstruction, Dyspnea, Exercise capacity)",
      "topics": [
        "bode_index"
      ]
    },
    {
      "page": "bone_markers",
      "title": "Compute Bone Health & Body-Composition Markers (HM-CS v3)",
      "topics": [
        "bone_markers"
      ]
    },
    {
      "page": "calc_sds",
      "title": "Calculate Standard Deviation Scores (SDS; z-scores) for health markers",
      "topics": [
        "calc_sds"
      ]
    },
    {
      "page": "charlson_index",
      "title": "Charlson Comorbidity Index (CCI)",
      "topics": [
        "charlson_index"
      ]
    },
    {
      "page": "ckd_stage",
      "title": "CKD staging (GFR and albuminuria) and KDIGO risk",
      "topics": [
        "ckd_stage"
      ]
    },
    {
      "page": "cognitive_score",
      "title": "Cognitive composite (z-mean or PCA1)",
      "topics": [
        "cognitive_score"
      ]
    },
    {
      "page": "corrected_calcium",
      "title": "Albumin-Corrected Calcium",
      "topics": [
        "corrected_calcium"
      ]
    },
    {
      "page": "cvd_marker_aip",
      "title": "Atherogenic Index of Plasma (AIP)",
      "topics": [
        "cvd_marker_aip"
      ]
    },
    {
      "page": "cvd_marker_ldl_particle_number",
      "title": "LDL Particle Number Estimate (via ApoB)",
      "topics": [
        "cvd_marker_ldl_particle_number"
      ]
    },
    {
      "page": "cvd_risk",
      "title": "Compute cardiovascular risk or marker by selected model",
      "topics": [
        "cvd_risk"
      ]
    },
    {
      "page": "cvd_risk_ascvd",
      "title": "ASCVD risk (ACC/AHA Pooled Cohort Equations)",
      "topics": [
        "cvd_risk_ascvd"
      ]
    },
    {
      "page": "cvd_risk_qrisk3",
      "title": "QRISK3 10-year risk (UK QRISK3-2017)",
      "topics": [
        "cvd_risk_qrisk3"
      ]
    },
    {
      "page": "cvd_risk_scorescvd",
      "title": "RiskScorescvd calculator",
      "topics": [
        "cvd_risk_scorescvd"
      ]
    },
    {
      "page": "cvd_risk_stroke",
      "title": "Stroke 10-year risk",
      "topics": [
        "cvd_risk_stroke"
      ]
    },
    {
      "page": "fasting_is",
      "title": "Calculate fasting-based insulin sensitivity indices",
      "topics": [
        "fasting_is"
      ]
    },
    {
      "page": "frailty_index",
      "title": "Compute Frailty (Deficit) Index using di::di with QA and verbose summaries",
      "topics": [
        "frailty_index"
      ]
    },
    {
      "page": "frax_score",
      "title": "FRAX 10-Year Fracture Risk Score (simplified placeholder)",
      "topics": [
        "frax_score"
      ]
    },
    {
      "page": "gad7_score",
      "title": "GAD-7 scoring",
      "topics": [
        "gad7_score"
      ]
    },
    {
      "page": "ghq12_score",
      "title": "GHQ-12 scoring (Likert or binary)",
      "topics": [
        "ghq12_score"
      ]
    },
    {
      "page": "glycemic_markers",
      "title": "Calculate glycemic-, C-peptide-, and additional metabolic markers",
      "topics": [
        "glycemic_markers"
      ]
    },
    {
      "page": "health_summary",
      "title": "Summarize selected numeric marker columns",
      "topics": [
        "health_summary"
      ]
    },
    {
      "page": "hm_col_report",
      "title": "Diagnose and report column name mapping for your data",
      "topics": [
        "hm_col_report"
      ]
    },
    {
      "page": "hm_normalize",
      "title": "Normalise marker columns in a data frame",
      "topics": [
        "hm_normalize"
      ]
    },
    {
      "page": "hormone_markers",
      "title": "Compute a suite of hormone ratio markers with QA and verbose summaries",
      "topics": [
        "hormone_markers"
      ]
    },
    {
      "page": "iAge",
      "title": "Compute a simplified Inflammatory Age Index (iAge) with QA and verbose summaries",
      "topics": [
        "iAge"
      ]
    },
    {
      "page": "impute_mice",
      "title": "Impute missing values via Multiple Imputation (mice)",
      "topics": [
        "impute_mice"
      ]
    },
    {
      "page": "impute_missforest",
      "title": "Impute missing values via random forest (missForest)",
      "topics": [
        "impute_missforest"
      ]
    },
    {
      "page": "impute_missing",
      "title": "Impute missing values in a data.frame or tibble (simple, column-wise)",
      "topics": [
        "impute_missing"
      ]
    },
    {
      "page": "inflammatory_markers",
      "title": "Compute inflammatory indices (classic, eosinophil, or both)",
      "topics": [
        "inflammatory_markers"
      ]
    },
    {
      "page": "isi_score",
      "title": "Insomnia Severity Index (ISI) scoring",
      "topics": [
        "isi_score"
      ]
    },
    {
      "page": "k10_score",
      "title": "K10 scoring",
      "topics": [
        "k10_score"
      ]
    },
    {
      "page": "k6_score",
      "title": "K6 scoring",
      "topics": [
        "k6_score"
      ]
    },
    {
      "page": "kidney_failure_risk",
      "title": "Kidney Failure Risk Equation (KFRE, 2- and 5-year risk)",
      "topics": [
        "kidney_failure_risk"
      ]
    },
    {
      "page": "kyn_trp_ratio",
      "title": "Kynurenine/Tryptophan Ratio (KTR)",
      "topics": [
        "kyn_trp_ratio"
      ]
    },
    {
      "page": "lipid_markers",
      "title": "Calculate lipid-panel markers, Visceral Adiposity Index (VAI), Lipid Accumulation Product (LAP), and TyG-BMI index",
      "topics": [
        "lipid_markers"
      ]
    },
    {
      "page": "liver_fat_markers",
      "title": "Liver fat surrogates: HSI and NAFLD Liver Fat Score",
      "topics": [
        "liver_fat_markers"
      ]
    },
    {
      "page": "liver_markers",
      "title": "Compute liver-related indices (FLI, NFS, APRI, FIB-4, BARD, ALBI, MELD-XI) with validation and diagnostics",
      "topics": [
        "liver_markers"
      ]
    },
    {
      "page": "marker_summary",
      "title": "Summarize marker outputs",
      "topics": [
        "marker_summary"
      ]
    },
    {
      "page": "mdq_score",
      "title": "Mood Disorder Questionnaire scoring",
      "topics": [
        "mdq_score"
      ]
    },
    {
      "page": "metabolic_markers",
      "title": "Aggregate selected metabolic marker groups",
      "topics": [
        "metabolic_markers"
      ]
    },
    {
      "page": "metabolic_risk_features",
      "title": "Calculate metabolic risk feature flags (pediatric-friendly thresholds)",
      "topics": [
        "metabolic_risk_features"
      ]
    },
    {
      "page": "metss",
      "title": "Metabolic Syndrome Severity Score (MetSSS)",
      "topics": [
        "metss"
      ]
    },
    {
      "page": "nfl_marker",
      "title": "Neurofilament Light Chain (NfL) Biomarker",
      "topics": [
        "nfl_marker"
      ]
    },
    {
      "page": "normalize_vec",
      "title": "Normalize a numeric vector",
      "topics": [
        "normalize_vec"
      ]
    },
    {
      "page": "nutrient_markers",
      "title": "Compute a Suite of Nutrient-Based Health Markers",
      "topics": [
        "nutrient_markers"
      ]
    },
    {
      "page": "obesity_indices",
      "title": "Compute anthropometric obesity & adiposity indices",
      "topics": [
        "obesity_indices"
      ]
    },
    {
      "page": "ogtt_is",
      "title": "Calculate OGTT-based insulin sensitivity indices",
      "topics": [
        "ogtt_is"
      ]
    },
    {
      "page": "oxidative_markers",
      "title": "Oxidative stress markers",
      "topics": [
        "oxidative_markers"
      ]
    },
    {
      "page": "phq9_score",
      "title": "PHQ-9 / PHQ-8 scoring",
      "topics": [
        "phq9_score"
      ]
    },
    {
      "page": "plot_frailty_age",
      "title": "Plot FI vs age (convenience wrapper)",
      "topics": [
        "plot_frailty_age"
      ]
    },
    {
      "page": "psych_dx_flags",
      "title": "Psychiatric diagnosis flags aggregator",
      "topics": [
        "psych_dx_flags"
      ]
    },
    {
      "page": "psych_markers",
      "title": "Psychometric markers dispatcher",
      "topics": [
        "psych_markers"
      ]
    },
    {
      "page": "psych_med_flags",
      "title": "Psychiatric medication flags aggregator",
      "topics": [
        "psych_med_flags"
      ]
    },
    {
      "page": "pulmo_markers",
      "title": "Calculate pulmonary function markers (FEV1/FVC, z-scores, percent predicted, LLN, etc.)",
      "topics": [
        "pulmo_markers"
      ]
    },
    {
      "page": "renal_markers",
      "title": "Calculate a Suite of Renal Function, Injury, and Excretion Markers",
      "topics": [
        "renal_markers"
      ]
    },
    {
      "page": "saliva_markers",
      "title": "Calculate saliva-based stress & glycemic markers",
      "topics": [
        "saliva_markers"
      ]
    },
    {
      "page": "sarc_f_score",
      "title": "SARC-F Sarcopenia Screening Score",
      "topics": [
        "sarc_f_score"
      ]
    },
    {
      "page": "spirometry_markers",
      "title": "Spirometry markers: FEV1/FVC, LLN-based obstruction, GOLD grade, bronchodilator response",
      "concept": [
        "respiratory-markers"
      ],
      "topics": [
        "spirometry_markers"
      ]
    },
    {
      "page": "spq_score",
      "title": "Schizotypal Personality Questionnaire (key-driven)",
      "topics": [
        "spq_score"
      ]
    },
    {
      "page": "sweat_markers",
      "title": "Calculate sweat-based ionic & metabolic markers",
      "topics": [
        "sweat_markers"
      ]
    },
    {
      "page": "tracer_dxa_is",
      "title": "Compute tracer/DXA-based insulin sensitivity indices",
      "topics": [
        "tracer_dxa_is"
      ]
    },
    {
      "page": "urine_markers",
      "title": "Calculate urine-only renal and tubular markers (research-ready)",
      "topics": [
        "urine_markers"
      ]
    },
    {
      "page": "validate_inputs",
      "title": "Validate required inputs for a calling function",
      "topics": [
        "validate_inputs"
      ]
    },
    {
      "page": "vitamin_d_status",
      "title": "Vitamin D Status Category",
      "topics": [
        "vitamin_d_status"
      ]
    },
    {
      "page": "vitamin_markers",
      "title": "Compute composite vitamin and endocrine marker ratios and z-scores",
      "topics": [
        "vitamin_markers"
      ]
    },
    {
      "page": "who5_score",
      "title": "WHO-5 scoring",
      "topics": [
        "who5_score"
      ]
    }
  ],
  "_readme": "https://github.com/sufyansuleman/healthmarkers/raw/HEAD/README.md",
  "_rundeps": [
    "cli",
    "dplyr",
    "generics",
    "glue",
    "lifecycle",
    "magrittr",
    "pillar",
    "pkgconfig",
    "R6",
    "rbibutils",
    "Rdpack",
    "rlang",
    "tibble",
    "tidyselect",
    "utf8",
    "vctrs",
    "withr"
  ],
  "_score": 4.778151250383644,
  "_indexed": true,
  "_nocasepkg": "healthmarkers",
  "_universes": [
    "sufyansuleman"
  ],
  "_binaries": [
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}