{ "_id": "6a1ee7e5b401979e73411962", "Package": "HealthMarkers", "Type": "Package", "Title": "Toolkit for Clinical, Metabolic, and Cardiovascular Biomarker\nCalculations", "Version": "0.1.2", "Authors@R": "person(given = \"Sufyan\", family = \"Suleman\",\nemail = \"sufyansuleman@hotmail.com\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0001-6612-6915\"))", "Description": "Computes over 50 specialist health marker functions\ncovering insulin sensitivity and resistance indices (fasting,\noral glucose tolerance test, adipose-tissue, tracer, and\ndual-energy X-ray absorptiometry (DXA)-based), glycaemic and\nlipid markers, atherogenic and metabolic syndrome scores, liver\nsteatosis and fibrosis scores, and cardiovascular risk\nalgorithms (Framingham Heart Study equations, atherosclerotic\ncardiovascular disease (ASCVD) Pooled Cohort Equations, the\nQRISK3 cardiac risk score, and Systematic Coronary Risk\nEvaluation 2 (SCORE2) including the Older Persons variant\n(SCORE2-OP)). Also implements renal function (estimated\nglomerular filtration rate (eGFR), Kidney Failure Risk Equation\n(KFRE), chronic kidney disease (CKD) staging), pulmonary\nfunction (spirometry z-scores, Body-mass index, airflow\nObstruction, Dyspnea, and Exercise capacity index (BODE)),\ninflammatory markers and the inflammatory age clock (iAge),\nhormonal panels, body composition and anthropometric z-scores,\nbone turnover markers and fracture risk (Fracture Risk\nAssessment Tool (FRAX)), frailty and comorbidity indices\n(Rockwood, Charlson), psychiatric rating scales, and biomarker\npanels from alternative biofluids (urine, saliva, sweat).\nMissing value imputation helpers, pre or post computation\nnormalization and a unified all_health_markers() dispatcher\nthat returns all requested marker groups as a single wide\ntibble are included.", "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", "RoxygenNote": "7.3.2", "Config/testthat/edition": "3", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-19 11:09:05 UTC", "User": "root" }, "Author": "Sufyan Suleman [aut, cre] (ORCID:\n)", "Maintainer": "Sufyan Suleman ", "Repository": "https://cran.r-universe.dev", "Date/Publication": "2026-05-19 08:41:04 UTC", "RemoteUrl": "https://github.com/cran/HealthMarkers", "RemoteRef": "HEAD", "RemoteSha": "67bfc5ed8c1d0a8ea0da928f9963ae377367fac6", "MD5sum": "cf2517a444d6e67b909cfb15f1b15ceb", "_user": "cran", "_type": "src", "_file": "HealthMarkers_0.1.2.tar.gz", "_fileid": "1f56fdb3fadd268a8f591dad64349810123d2a765f920fddad211ac26df54372", "_filesize": 1098213, "_sha256": "1f56fdb3fadd268a8f591dad64349810123d2a765f920fddad211ac26df54372", "_created": "2026-05-19T11:09:05.000Z", "_published": "2026-06-02T14:25:41.473Z", "_distro": "noble", "_jobs": [ { "job": 79093981622, "time": 184, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "7081833690" }, { "job": 79093981806, "time": 180, "config": "linux-release-x86_64", "r": "4.6.0", "check": "ERROR", "artifact": "7081832914" }, { "job": 79093980080, "time": 245, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7081770807" }, { "job": 79093979695, "time": 136, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7360531433" } ], "_buildurl": "https://github.com/r-universe/cran/actions/runs/26093148745", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cran/HealthMarkers", "_commit": { "id": "67bfc5ed8c1d0a8ea0da928f9963ae377367fac6", "author": "Sufyan Suleman ", "committer": "cran-robot ", "message": "version 0.1.2\n", "time": 1779180064 }, "_maintainer": { "name": "Sufyan Suleman", "email": "sufyansuleman@hotmail.com", "login": "sufyansuleman", "linkedin": "in/sufyan-suleman", "twitter": "@sufyansuleman_1", "description": "Genomics of Psychiatric and Metabolic traits", "uuid": 48591035, "orcid": "0000-0001-6612-6915" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.0", "role": "Depends" }, { "package": "dplyr", "version": ">= 1.0.0", "role": "Imports" }, { "package": "rlang", "version": ">= 1.0.0", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "tibble", "version": ">= 3.0.0", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "vctrs", "role": "Imports" }, { "package": "Rdpack", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "pkgload", "role": "Suggests" }, { "package": "CVrisk", "role": "Suggests" }, { "package": "di", "role": "Suggests" }, { "package": "rspiro", "role": "Suggests" }, { "package": "PooledCohort", "role": "Suggests" }, { "package": "QRISK3", "role": "Suggests" }, { "package": "RiskScorescvd", "role": "Suggests" }, { "package": "usethis", "role": "Suggests" }, { "package": "withr", "role": "Suggests" }, { "package": "mice", "role": "Suggests" }, { "package": "missForest", "role": "Suggests" } ], "_owner": "cran", "_selfowned": false, "_usedby": 0, "_updates": [ { "week": "2026-21", "n": 1 } ], "_tags": [ { "name": "0.1.2", "date": "2026-05-19" } ], "_stars": 0, "_contributors": [ { "user": "sufyansuleman", "count": 1, "uuid": 48591035 } ], "_userbio": { "uuid": 6899542, "type": "organization", "name": "cran", "description": "Unofficial read-only mirror of all CRAN R packages" }, "_downloads": { "count": 0, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/HealthMarkers" }, "_devurl": "https://github.com/sufyansuleman/healthmarkers", "_pkgdown": "https://sufyansuleman.github.io/HealthMarkers/", "_searchresults": 60, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/HealthMarkers.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_cranurl": false, "_releases": [ { "version": "0.1.2", "date": "2026-05-19" } ], "_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/cran/HealthMarkers/raw/HEAD/README.md", "_rundeps": [ "cli", "dplyr", "generics", "glue", "lifecycle", "magrittr", "pillar", "pkgconfig", "R6", "rbibutils", "Rdpack", "rlang", "tibble", "tidyselect", "utf8", "vctrs", "withr" ], "_score": 2.4771212547196626, "_indexed": true, "_nocasepkg": "healthmarkers", "_universes": [ "cran", "sufyansuleman" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.1.2", "date": "2026-05-19T11:11:46.000Z", "distro": "noble", "commit": "67bfc5ed8c1d0a8ea0da928f9963ae377367fac6", "fileid": "99711150e4228e7fb8388e1243c2ca4b282b00ad66e27a04c7fd04a10f6e1189", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/cran/actions/runs/26093148745" }, { "r": "4.6.0", "os": "linux", "version": "0.1.2", "date": "2026-05-19T11:11:41.000Z", "distro": "noble", "commit": "67bfc5ed8c1d0a8ea0da928f9963ae377367fac6", "fileid": "10f53ab907550fbe4c2502960704457fe59564cd13a19e0bf3a3524670c593ca", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/cran/actions/runs/26093148745" }, { "r": "4.6.0", "os": "wasm", "version": "0.1.2", "date": "2026-06-02T14:25:22.000Z", "commit": "67bfc5ed8c1d0a8ea0da928f9963ae377367fac6", "fileid": "e3cab22349894d36c69ae8ba2a3436f10de7a602d7b8c46114f47d17cdf16d96", "status": "success", "buildurl": "https://github.com/r-universe/cran/actions/runs/26093148745" } ] }