{ "_id": "6a55debeff0138dec5d6a086", "Package": "PTSDdiag", "Type": "Package", "Title": "Optimize PTSD Diagnostic Criteria", "Version": "0.4.1", "Authors@R": "c(\nperson(\n\"Laura\", \"Weidmann\",\ncomment = c(ORCID = \"0009-0006-5509-6961\"),\nrole = c(\"aut\")\n),\nperson(\n\"Tobias R.\", \"Spiller\",\nemail = \"tobias.spiller@access.uzh.ch\",\ncomment = c(ORCID = \"0000-0002-0107-0743\"),\nrole = c(\"aut\", \"cre\")\n),\nperson(\n\"Flavio A.\", \"Schüepp\",\ncomment = c(ORCID = \"0000-0002-0750-3888\"),\nrole = c(\"aut\")\n)\n)", "Description": "Provides tools for analyzing and optimizing PTSD\n(Post-Traumatic Stress Disorder) diagnostic criteria using\nPCL-5 (PTSD Checklist for DSM-5) and CAPS-5\n(Clinician-Administered PTSD Scale for DSM-5) data. Functions\nidentify optimal subsets of PCL-5 items that maintain\ndiagnostic accuracy while reducing assessment burden. Includes\ntools for both hierarchical (cluster-based) and\nnon-hierarchical symptom combinations, calculation of\ndiagnostic metrics, and comparison with standard DSM-5\ncriteria. Model validation is conducted using holdout and\ncross-validation methods to assess robustness and\ngeneralizability of the results. For more details see Weidmann\net al. (2025) .", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "7.3.3", "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "URL": "https://tobiasrspiller.github.io/PTSDdiag/,\nhttps://github.com/TobiasRSpiller/PTSDdiag", "BugReports": "https://github.com/TobiasRSpiller/PTSDdiag/issues", "Config/pak/sysreqs": "libicu-dev", "Repository": "https://tobiasrspiller.r-universe.dev", "Date/Publication": "2026-07-13 08:50:24 UTC", "RemoteUrl": "https://github.com/tobiasrspiller/ptsddiag", "RemoteRef": "HEAD", "RemoteSha": "5c31d325da096301a74e56130d922fadd85e4d62", "NeedsCompilation": "no", "Packaged": { "Date": "2026-07-14 06:54:59 UTC", "User": "root" }, "Author": "Laura Weidmann [aut] (ORCID: ),\nTobias R. Spiller [aut, cre] (ORCID:\n),\nFlavio A. Schüepp [aut] (ORCID:\n)", "Maintainer": "Tobias R. Spiller ", "_user": "tobiasrspiller", "_type": "src", "_file": "PTSDdiag_0.4.1.tar.gz", "_fileid": "https://r2.ropensci.org/577a7701ce64bbf4c39844f053a0827795758b4815b312d35dbb81da71fbaf0a", "_filesize": 694890, "_sha256": "577a7701ce64bbf4c39844f053a0827795758b4815b312d35dbb81da71fbaf0a", "_expires": "2026-10-22T07:01:16.000Z", "_created": "2026-07-14T06:54:59.000Z", "_published": "2026-07-14T07:01:18.577Z", "_jobs": [ { "job": 87020227642, "time": 299, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "8302827857" }, { "job": 87020227679, "time": 175, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "8302809689" }, { "job": 87020227635, "time": 285, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "8302826079" }, { "job": 87020227652, "time": 151, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "8302790336" }, { "job": 87019341177, "time": 314, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "8302745400" }, { "job": 87020227604, "time": 130, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "8302793449" }, { "job": 87020227638, "time": 142, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "8302797854" }, { "job": 87020227640, "time": 112, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "8302787545" }, { "job": 87020227694, "time": 133, "config": "windows-release", "r": "4.6.1", "check": "OK", "artifact": "8302795381" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/tobiasrspiller/actions/runs/29312548471", "_status": "success", "_upstream": "https://github.com/tobiasrspiller/ptsddiag", "_commit": { "id": "5c31d325da096301a74e56130d922fadd85e4d62", "author": "Tobias Spiller <54402019+TobiasRSpiller@users.noreply.github.com>", "committer": "GitHub ", "message": "Merge pull request #15 from TobiasRSpiller/release-0.4.1\n\nPTSDdiag 0.4.1 — reduce CRAN check time (resubmission after checktime auto-reject)", "time": 1783932624 }, "_maintainer": { "name": "Tobias R. Spiller", "email": "tobias.spiller@access.uzh.ch", "orcid": "0000-0002-0107-0743" }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "cli", "role": "Imports" }, { "package": "dplyr", "role": "Imports" }, { "package": "jsonlite", "role": "Imports" }, { "package": "lifecycle", "role": "Imports" }, { "package": "magrittr", "role": "Imports" }, { "package": "rlang", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "rsample", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "DT", "role": "Suggests" }, { "package": "future.apply", "role": "Suggests" }, { "package": "ggplot2", "role": "Suggests" }, { "package": "gtsummary", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "lattice", "role": "Suggests" }, { "package": "psych", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "tidyr", "role": "Suggests" } ], "_owner": "tobiasrspiller", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-07", "n": 1 }, { "week": "2026-08", "n": 2 }, { "week": "2026-12", "n": 1 }, { "week": "2026-20", "n": 7 }, { "week": "2026-22", "n": 1 }, { "week": "2026-23", "n": 2 }, { "week": "2026-24", "n": 2 }, { "week": "2026-28", "n": 1 }, { "week": "2026-29", "n": 1 } ], "_tags": [], "_stars": 0, "_contributors": [ { "user": "tobiasrspiller", "count": 36, "uuid": 54402019 } ], "_userbio": { "uuid": 54402019, "type": "user", "name": "Tobias Spiller", "followers": 6, "description": "Postdoctoral Fellow at Yale University School of Medicine" }, "_downloads": { "count": 212, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/PTSDdiag" }, "_devurl": "https://github.com/tobiasrspiller/ptsddiag", "_pkgdown": "https://tobiasrspiller.github.io/PTSDdiag/", "_searchresults": 0, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/PTSDdiag.html", "extra/readme.html", "extra/readme.md", "LICENSE", "manual.pdf" ], "_homeurl": "https://github.com/tobiasrspiller/ptsddiag", "_realowner": "tobiasrspiller", "_cranurl": true, "_releases": [ { "version": "0.1.0", "date": "2026-02-16" }, { "version": "0.4.1", "date": "2026-07-13" } ], "_exports": [ "analyze_best_six_symptoms_four_required", "analyze_best_six_symptoms_four_required_clusters", "apply_symptom_combinations", "as_definitions", "binarize_data", "calculate_ptsd_total", "check_pcl5_data", "compare_diagnostic_systems", "compare_optimizations", "create_caps5_diagnosis", "create_icd11_diagnosis", "create_ptsd_diagnosis_binarized", "create_ptsd_diagnosis_nonbinarized", "create_readable_summary", "cross_validation", "evaluate_definitions", "extract_definitions", "holdout_validation", "optimize_combinations", "optimize_combinations_clusters", "plot_symptom_frequency", "read_combinations", "rename_caps5_columns", "rename_ptsd_columns", "score_all_combinations", "summarize_ptsd", "summarize_ptsd_changes", "summarize_top_combinations", "symptom_frequency", "write_combinations" ], "_datasets": [ { "name": "simulated_ptsd", "title": "Simulated PCL-5 (PTSD Checklist) Data", "object": "simulated_ptsd", "class": [ "data.frame" ], "fields": [ "patient_id", "age", "sex", "S1", "S2", "S3", "S4", "S5", "S6", "S7", "S8", "S9", "S10", "S11", "S12", "S13", "S14", "S15", "S16", "S17", "S18", "S19", "S20" ], "rows": 5000, "table": true, "tojson": true }, { "name": "simulated_ptsd_genpop", "title": "Simulated General Population PCL-5 Data", "object": "simulated_ptsd_genpop", "class": [ "data.frame" ], "fields": [ "patient_id", "age", "sex", "S1", "S2", "S3", "S4", "S5", "S6", "S7", "S8", "S9", "S10", "S11", "S12", "S13", "S14", "S15", "S16", "S17", "S18", "S19", "S20", "C1", "C2", "C3", "C4", "C5", "C6", "C7", "C8", "C9", "C10", "C11", "C12", "C13", "C14", "C15", "C16", "C17", "C18", "C19", "C20" ], "rows": 1200, "table": true, "tojson": true } ], "_help": [ { "page": "analyze_best_six_symptoms_four_required", "title": "Find optimal non-hierarchical six-symptom combinations for PTSD diagnosis", "topics": [ "analyze_best_six_symptoms_four_required" ] }, { "page": "analyze_best_six_symptoms_four_required_clusters", "title": "Find optimal hierarchical six-symptom combinations for PTSD diagnosis", "topics": [ "analyze_best_six_symptoms_four_required_clusters" ] }, { "page": "apply_symptom_combinations", "title": "Apply pre-specified symptom combinations to new data", "topics": [ "apply_symptom_combinations" ] }, { "page": "as_definitions", "title": "Convert imported combination specifications into definitions", "topics": [ "as_definitions" ] }, { "page": "binarize_data", "title": "Binarize PCL-5 symptom scores", "topics": [ "binarize_data" ] }, { "page": "calculate_ptsd_total", "title": "Calculate PTSD total score", "topics": [ "calculate_ptsd_total" ] }, { "page": "check_pcl5_data", "title": "Check PCL-5 item data before starting the workflow", "topics": [ "check_pcl5_data" ] }, { "page": "compare_diagnostic_systems", "title": "Compare multiple diagnostic systems against a reference standard", "topics": [ "compare_diagnostic_systems" ] }, { "page": "compare_optimizations", "title": "Run multiple PTSD optimization scenarios in one call", "topics": [ "compare_optimizations" ] }, { "page": "create_caps5_diagnosis", "title": "Compute CAPS-5 DSM-5-TR PTSD diagnosis", "topics": [ "create_caps5_diagnosis" ] }, { "page": "create_icd11_diagnosis", "title": "Apply ICD-11 PTSD diagnostic criteria to PCL-5 data", "topics": [ "create_icd11_diagnosis" ] }, { "page": "create_ptsd_diagnosis_binarized", "title": "Determine PTSD diagnosis based on DSM-5 criteria using binarized scores", "topics": [ "create_ptsd_diagnosis_binarized" ] }, { "page": "create_ptsd_diagnosis_nonbinarized", "title": "Determine PTSD diagnosis based on DSM-5 criteria using non-binarized scores", "topics": [ "create_ptsd_diagnosis_nonbinarized" ] }, { "page": "create_readable_summary", "title": "Create readable summary of PTSD diagnostic changes", "topics": [ "create_readable_summary" ] }, { "page": "cross_validation", "title": "Perform k-fold cross-validation for PTSD diagnostic models", "topics": [ "cross_validation" ] }, { "page": "evaluate_definitions", "title": "Evaluate symptom definitions against a sample", "topics": [ "evaluate_definitions" ] }, { "page": "extract_definitions", "title": "Extract portable symptom definitions from a comparison", "topics": [ "extract_definitions" ] }, { "page": "holdout_validation", "title": "Perform holdout validation for PTSD diagnostic models", "topics": [ "holdout_validation" ] }, { "page": "optimize_combinations", "title": "Find optimal symptom combinations for diagnosis (non-hierarchical)", "topics": [ "optimize_combinations" ] }, { "page": "optimize_combinations_clusters", "title": "Find optimal symptom combinations for diagnosis (hierarchical/cluster-based)", "topics": [ "optimize_combinations_clusters" ] }, { "page": "plot_symptom_frequency", "title": "Heatmap of PCL-5 symptom selection frequency across optimization scenarios", "topics": [ "plot_symptom_frequency" ] }, { "page": "print.ptsdiag_comparison", "title": "Print method for ptsdiag_comparison objects", "topics": [ "print.ptsdiag_comparison" ] }, { "page": "read_combinations", "title": "Read symptom combinations from a JSON file", "topics": [ "read_combinations" ] }, { "page": "rename_caps5_columns", "title": "Rename CAPS-5 symptom columns", "topics": [ "rename_caps5_columns" ] }, { "page": "rename_ptsd_columns", "title": "Rename PTSD symptom (= PCL-5 item) columns", "topics": [ "rename_ptsd_columns" ] }, { "page": "score_all_combinations", "title": "Score every candidate symptom combination", "topics": [ "score_all_combinations" ] }, { "page": "simulated_ptsd", "title": "Simulated PCL-5 (PTSD Checklist) Data", "topics": [ "simulated_ptsd" ] }, { "page": "simulated_ptsd_genpop", "title": "Simulated General Population PCL-5 Data", "topics": [ "simulated_ptsd_genpop" ] }, { "page": "summarize_ptsd", "title": "Summarize PTSD scores and diagnoses", "topics": [ "summarize_ptsd" ] }, { "page": "summarize_ptsd_changes", "title": "Summarize changes in PTSD diagnostic metrics", "topics": [ "summarize_ptsd_changes" ] }, { "page": "summarize_top_combinations", "title": "Build a tidy comparison table of top combinations across scenarios", "topics": [ "summarize_top_combinations" ] }, { "page": "symptom_frequency", "title": "Per-symptom inclusion counts across optimization scenarios", "topics": [ "symptom_frequency" ] }, { "page": "write_combinations", "title": "Write symptom combinations to a JSON file", "topics": [ "write_combinations" ] } ], "_pkglogo": "https://github.com/tobiasrspiller/ptsddiag/raw/HEAD/man/figures/logo.png", "_readme": "https://github.com/tobiasrspiller/ptsddiag/raw/HEAD/README.md", "_rundeps": [ "cli", "codetools", "cpp11", "digest", "dplyr", "furrr", "future", "generics", "globals", "glue", "jsonlite", "lifecycle", "listenv", "magrittr", "parallelly", "pillar", "pkgconfig", "purrr", "R6", "rlang", "rsample", "slider", "stringi", "stringr", "tibble", "tidyr", "tidyselect", "utf8", "vctrs", "warp", "withr" ], "_vignettes": [ { "source": "caps5-workflow.Rmd", "filename": "caps5-workflow.html", "title": "CAPS-5 workflow", "engine": "knitr::rmarkdown", "headings": [ "Why use the CAPS-5", "The bundled paired data", "Computing the CAPS-5 diagnosis", "Comparing the PCL-5 and CAPS-5 diagnoses", "Optimizing against the CAPS-5 diagnosis", "Validating derived definitions against the CAPS-5 diagnosis", "Interpreting agreement and disagreement", "See also" ], "created": "2026-06-07 09:59:33", "modified": "2026-07-13 08:50:24", "commits": 5 }, { "source": "comparing-criteria.Rmd", "filename": "comparing-criteria.html", "title": "Comparing diagnostic criteria", "engine": "knitr::rmarkdown", "headings": [ "Why compare different definitions", "Requirements for the input data", "Running the comparison in one call", "A performance table for the manuscript", "Core symptoms across definitions", "Customising the scenarios", "See also" ], "created": "2026-06-07 09:59:33", "modified": "2026-07-13 08:50:24", "commits": 6 }, { "source": "getting-started.Rmd", "filename": "getting-started.html", "title": "Getting started with PTSDdiag", "engine": "knitr::rmarkdown", "headings": [ "The problem addressed by PTSDdiag", "Requirements for the input data", "Importing and preparing the data", "Defining the reference diagnosis", "Identifying a symptom subset", "Diagnostic performance metrics", "Where next" ], "created": "2026-06-07 09:59:33", "modified": "2026-07-13 08:50:24", "commits": 5 }, { "source": "multi-site-validation.Rmd", "filename": "multi-site-validation.html", "title": "Validating a shared definition across sites", "engine": "knitr::rmarkdown", "headings": [ "The multi-site problem", "Requirements for the input data", "Site 1: deriving the definition in the veteran sample", "Sharing the definitions without sharing data", "Evaluating every definition in a sample", "Performance in the derivation sample", "Validating in the general-population sample", "A tidy table for downstream analysis", "Reading the two tables together", "See also" ], "created": "2026-06-07 09:59:33", "modified": "2026-07-13 08:50:24", "commits": 5 }, { "source": "validation.Rmd", "filename": "validation.html", "title": "Validating abbreviated symptom definitions", "engine": "knitr::rmarkdown", "headings": [ "Why validation matters", "Requirements for the input data", "Internal validation", "External validation in a second cohort", "How special is the winning subset?", "See also" ], "created": "2026-06-07 09:59:33", "modified": "2026-07-13 08:50:24", "commits": 5 } ], "_score": 5.352182518111363, "_indexed": true, "_nocasepkg": "ptsddiag", "_universes": [ "tobiasrspiller" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.4.1", "date": "2026-07-14T06:58:27.000Z", "distro": "resolute", "commit": "5c31d325da096301a74e56130d922fadd85e4d62", "fileid": "https://r2.ropensci.org/8a2b63a3035f9db0bf6175837613dffcc01c20e4cffe88b94eed23c51477fe40", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tobiasrspiller/actions/runs/29312548471" }, { "r": "4.6.1", "os": "linux", "version": "0.4.1", "date": "2026-07-14T06:57:33.000Z", "distro": "resolute", "commit": "5c31d325da096301a74e56130d922fadd85e4d62", "fileid": "https://r2.ropensci.org/0becac092aacbd84e8f40dd1245a4e65d0d2adf4f7a1f3a6dc4d4ef3e135d3f9", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tobiasrspiller/actions/runs/29312548471" }, { "r": "4.5.3", "os": "mac", "version": "0.4.1", "date": "2026-07-14T06:58:16.000Z", "commit": "5c31d325da096301a74e56130d922fadd85e4d62", "fileid": "https://r2.ropensci.org/4b5067116d8fad91a27686d46dad84e12a81c3e013facfb5b09a008f13d204f0", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tobiasrspiller/actions/runs/29312548471" }, { "r": "4.6.1", "os": "mac", "version": "0.4.1", "date": "2026-07-14T06:56:54.000Z", "commit": "5c31d325da096301a74e56130d922fadd85e4d62", "fileid": "https://r2.ropensci.org/6426c3f18d81498d41836a8b5527fc822083ca818dcbc494d7c5e721db92c5e1", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tobiasrspiller/actions/runs/29312548471" }, { "r": "4.6.0", "os": "wasm", "version": "0.4.1", "date": "2026-07-14T06:57:29.000Z", "commit": "5c31d325da096301a74e56130d922fadd85e4d62", "fileid": "https://r2.ropensci.org/e58a055832885979a8f49f292afa95fd6823ba6b4cb5dcac700ad587a268a668", "status": "success", "buildurl": "https://github.com/r-universe/tobiasrspiller/actions/runs/29312548471" }, { "r": "4.7.0", "os": "win", "version": "0.4.1", "date": "2026-07-14T06:56:54.000Z", "commit": "5c31d325da096301a74e56130d922fadd85e4d62", "fileid": "https://r2.ropensci.org/2b50fb1f972dd0bb42dd4bea5c5ede8e297149baab6f526a479673ac8b6f91fc", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tobiasrspiller/actions/runs/29312548471" }, { "r": "4.5.3", "os": "win", "version": "0.4.1", "date": "2026-07-14T06:56:21.000Z", "commit": "5c31d325da096301a74e56130d922fadd85e4d62", "fileid": "https://r2.ropensci.org/af15598ac0fef0c186f5aee02f14f82f708c32241882c639d38a8cc377976574", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tobiasrspiller/actions/runs/29312548471" }, { "r": "4.6.1", "os": "win", "version": "0.4.1", "date": "2026-07-14T06:56:40.000Z", "commit": "5c31d325da096301a74e56130d922fadd85e4d62", "fileid": "https://r2.ropensci.org/7d0074a541cd420a08eb53c08db340c95be3fd38d38b1541ae522fe2fd8a9bec", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/tobiasrspiller/actions/runs/29312548471" } ] }