{ "_id": "6a1d438f1d7bb097a0a4193e", "Package": "prevtoinc", "Title": "Prevalence to Incidence Calculations for Point-Prevalence\nStudies in a Nosocomial Setting", "Version": "0.12.0", "Authors@R": "person(\"Niklas\", \"Willrich\", email = \"WillrichN@rki.de\", role = c(\"aut\", \"cre\"))", "Author": "Niklas Willrich [aut, cre]", "Maintainer": "Niklas Willrich ", "Description": "Functions to simulate point prevalence studies (PPSs) of\nhealthcare-associated infections (HAIs) and to convert\nprevalence to incidence in steady state setups. Companion\npackage to the preprint Willrich et al., From prevalence to\nincidence - a new approach in the hospital setting;\n , where methods are explained in detail.", "License": "MIT + file LICENSE", "RoxygenNote": "6.1.1", "VignetteBuilder": "knitr", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-01 08:29:17 UTC", "User": "root" }, "Repository": "https://cran.r-universe.dev", "Date/Publication": "2019-06-18 12:50:04 UTC", "RemoteUrl": "https://github.com/cran/prevtoinc", "RemoteRef": "HEAD", "RemoteSha": "abbb8c0e5777714f5676354c052627602746f164", "MD5sum": "254166b84ed0a8c37cebf7ada0646d2e", "_user": "cran", "_type": "src", "_file": "prevtoinc_0.12.0.tar.gz", "_fileid": "d1fc06ad20a2d16a3fcdcef1e710b2811f286faf830f8b1000acf44e88e0f1f5", "_filesize": 329020, "_sha256": "d1fc06ad20a2d16a3fcdcef1e710b2811f286faf830f8b1000acf44e88e0f1f5", "_created": "2026-06-01T08:29:17.000Z", "_published": "2026-06-01T08:32:15.241Z", "_distro": "noble", "_jobs": [ { "job": 78814336249, "time": 134, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "7326821507" }, { "job": 78814336281, "time": 144, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7326824445" }, { "job": 78813867273, "time": 189, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7326777690" }, { "job": 78814336260, "time": 118, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7326816385" } ], "_buildurl": "https://github.com/r-universe/cran/actions/runs/26743725411", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cran/prevtoinc", "_commit": { "id": "abbb8c0e5777714f5676354c052627602746f164", "author": "Niklas Willrich ", "committer": "cran-robot ", "message": "version 0.12.0\n", "time": 1560862204 }, "_maintainer": { "name": "Niklas Willrich", "email": "willrichn@rki.de" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.2.2", "role": "Depends" }, { "package": "dplyr", "role": "Imports" }, { "package": "rlang", "role": "Imports" }, { "package": "tibble", "role": "Imports" }, { "package": "purrr", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "testthat", "role": "Suggests" }, { "package": "ggplot2", "role": "Suggests" }, { "package": "gridExtra", "role": "Suggests" }, { "package": "tidyr", "role": "Suggests" } ], "_owner": "cran", "_selfowned": false, "_usedby": 1, "_updates": [], "_tags": [], "_stars": 0, "_userbio": { "uuid": 6899542, "type": "organization", "name": "cran", "description": "Unofficial read-only mirror of all CRAN R packages" }, "_downloads": { "count": 148, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/prevtoinc" }, "_searchresults": 20, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/prevtoinc.html", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_realowner": "cran", "_cranurl": false, "_releases": [ { "version": "0.11.0", "date": "2019-03-10" }, { "version": "0.12.0", "date": "2019-06-18" } ], "_exports": [ "A_to_X_dist", "calculate_CI_I_pp", "calculate_I", "calculate_I_mixed", "calculate_I_rhame", "calculate_I_smooth", "CI_np_bs", "create_dist_vec", "create_patient_history_add", "epmf", "generate_I_fast", "geom_dist_fct", "length_biased_dist", "length_unbiased_mean", "monotone_smoother", "pois_dist_fct", "simulate_incidence_stats", "simulate_incidence_stats_fast", "simulate_pps_data", "simulate_pps_fast", "X_to_A_dist" ], "_help": [ { "page": "A_to_X_dist", "title": "function to transform the distribution of stays to a fixed point to the distribution of the staying times", "topics": [ "A_to_X_dist" ] }, { "page": "calculate_CI_I_pp", "title": "Calculate confidence intervals for Grenander estimator of Ipp based on asymptotics", "topics": [ "calculate_CI_I_pp" ] }, { "page": "calculate_I", "title": "Function to calculate different estimators for I from PPS data.", "topics": [ "calculate_I" ] }, { "page": "calculate_I_mixed", "title": "Function to calculate incidence from PPS data using a mix of two estimators", "topics": [ "calculate_I_mixed" ] }, { "page": "calculate_I_rhame", "title": "Function to calculate incidence from PPS data using a Rhame-Sudderth like approach with estimates for x.loi and x.los supplied.", "topics": [ "calculate_I_rhame" ] }, { "page": "calculate_I_smooth", "title": "Estimate the incidence based on PPS data using monotone estimators for the distribution of A.", "topics": [ "calculate_I_smooth" ] }, { "page": "CI_np_bs", "title": "Function to calculate confidence intervals I.pp for gren estimator with bootstrap method based on Grenander estimator", "topics": [ "CI_np_bs" ] }, { "page": "create_dist_vec", "title": "Create vector of probabilities for a finite positive discrete distribution", "topics": [ "create_dist_vec" ] }, { "page": "create_patient_history_add", "title": "Function to simulate a single hospital bed trajectory", "topics": [ "create_patient_history_add" ] }, { "page": "epmf", "title": "Calculate empirical probability mass function for a discrete positive distribution starting at 1", "topics": [ "epmf" ] }, { "page": "generate_I_fast", "title": "Function to simulate PPS and data and calculate a number of estimators", "topics": [ "generate_I_fast" ] }, { "page": "geom_dist_fct", "title": "Probability mass function for a geometric distribution shifted by one and resulting expected value 8", "topics": [ "geom_dist_fct" ] }, { "page": "length_biased_dist", "title": "Calculate length-biased distribution from discrete length-unbiased distribution starting at 1", "topics": [ "length_biased_dist" ] }, { "page": "length_unbiased_mean", "title": "Calculate mean of length-unbiased distribution from discrete length-biased distribution starting at 1", "topics": [ "length_unbiased_mean" ] }, { "page": "monotone_smoother", "title": "Calculate a monotone probability mass function estimate", "topics": [ "monotone_smoother" ] }, { "page": "pois_dist_fct", "title": "Probability mass function for a Poisson distribution shifted by one and resulting expected value 8", "topics": [ "pois_dist_fct" ] }, { "page": "prevtoinc", "title": "prevtoinc:", "topics": [ "prevtoinc-package", "prevtoinc" ] }, { "page": "simulate_incidence_stats", "title": "Calculate theoretical values like x.los, x.loi and other characteristics of the patient population", "topics": [ "simulate_incidence_stats" ] }, { "page": "simulate_incidence_stats_fast", "title": "Function to calculate theoretical value for x.loi and I", "topics": [ "simulate_incidence_stats_fast" ] }, { "page": "simulate_pps_data", "title": "Function to simulate PPS data", "topics": [ "simulate_pps_data" ] }, { "page": "simulate_pps_fast", "title": "Faster method to generate data for PPS with only length of nosocomial infections as output", "topics": [ "simulate_pps_fast" ] }, { "page": "X_to_A_dist", "title": "Transform a distribution of times of stay to a distribution of staying-time up to observation point under assumption of steady state.", "topics": [ "X_to_A_dist" ] } ], "_readme": "https://github.com/cran/prevtoinc/raw/HEAD/README.md", "_rundeps": [ "cli", "dplyr", "generics", "glue", "lifecycle", "magrittr", "pillar", "pkgconfig", "purrr", "R6", "rlang", "tibble", "tidyselect", "utf8", "vctrs", "withr" ], "_vignettes": [ { "source": "prevtoinc_vignette.Rmd", "filename": "prevtoinc_vignette.html", "title": "Overview of the prevtoinc package", "author": "Niklas Willrich", "engine": "knitr::rmarkdown", "headings": [ "The basic structure of the package", "Simulating PPS data", "Simulating a PPS", "Extended simulation method", "Modelling assumptions", "Simulation environment", "Estimating incidence from PPS data", "The new estimator", "Confidence intervals for the new estimator", "Other estimators", "Helper functions", "References" ], "created": "2019-03-10 07:30:02", "modified": "2019-06-18 12:50:04", "commits": 2 } ], "_score": 3.4771212547196626, "_indexed": true, "_nocasepkg": "prevtoinc", "_universes": [ "cran" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.12.0", "date": "2026-06-01T08:31:26.000Z", "distro": "noble", "commit": "abbb8c0e5777714f5676354c052627602746f164", "fileid": "c2a3ecd4f6831130a28ef77d913f62aa8b4439f7493c2bd2c7cedc2be4e11f8f", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cran/actions/runs/26743725411" }, { "r": "4.6.0", "os": "linux", "version": "0.12.0", "date": "2026-06-01T08:31:31.000Z", "distro": "noble", "commit": "abbb8c0e5777714f5676354c052627602746f164", "fileid": "22904419eaa8ed36750852c99a139464b224fb62fc65efb8747de7123e403e98", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cran/actions/runs/26743725411" }, { "r": "4.6.0", "os": "wasm", "version": "0.12.0", "date": "2026-06-01T08:31:32.000Z", "commit": "abbb8c0e5777714f5676354c052627602746f164", "fileid": "11a95f23c45f06f0702e473dc3b60430cedb97b75a38a6cabacf5b3a01de8794", "status": "success", "buildurl": "https://github.com/r-universe/cran/actions/runs/26743725411" } ] }