{ "_id": "6aa7bf12089bafb098cf50cd", "Package": "ltRISK", "Title": "Estimate Lifetime and Age-Conditional Risk of Developing or\nDying from Cancer", "Version": "0.1.0", "Authors@R": "person(\"Qiong\", \"Chen\",\nemail = \"chenq08@126.com\",\nrole = c(\"aut\", \"cre\", \"cph\"),\ncomment = c(ORCID = \"0000-0003-2401-0046\"))", "Description": "Estimates lifetime and age-conditional risks of developing\nor dying from cancer using population-based cancer registry\ndata. Four established approaches for lifetime risk estimation\nare implemented: the DevCan method developed by the\nSurveillance, Epidemiology, and End Results (SEER) Program, the\nWun method, the Adjusted for Multiple Primary Cancers (AMP)\nmethod, and a cumulative risk approach with a predefined upper\nage limit. The package provides a unified interface through the\ncalc_ltr() function, which supports both gamma-based and\ndelta-method confidence intervals, as well as the piecewise\nmid-age group joinpoint (PMAJ) model for age-specific rate\nmodeling.", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "Language": "en-US", "Roxygen": "list(markdown = TRUE)", "LazyData": "true", "URL": "https://github.com/gigu003/ltRISK", "BugReports": "https://github.com/gigu003/ltRISK/issues", "Config/testthat/edition": "3", "VignetteBuilder": "knitr", "Config/roxygen2/version": "8.0.0", "Repository": "https://gigu003.r-universe.dev", "Date/Publication": "2026-08-15 16:02:41 UTC", "RemoteUrl": "https://github.com/gigu003/ltRISK", "RemoteRef": "HEAD", "RemoteSha": "765db198c28a6dfa1ac56f9922e7af41111aedf6", "NeedsCompilation": "no", "Packaged": { "Date": "2026-09-14 09:20:22 UTC", "User": "root" }, "Author": "Qiong Chen [aut, cre, cph] (ORCID:\n)", "Maintainer": "Qiong Chen ", "_user": "gigu003", "_type": "src", "_file": "ltRISK_0.1.0.tar.gz", "_fileid": "https://r2.ropensci.org/a324492855ea4fa7846a23f0bf7853b9059a2d616f80bcc1c8f3783a36d3eee0", "_filesize": 785284, "_sha256": "a324492855ea4fa7846a23f0bf7853b9059a2d616f80bcc1c8f3783a36d3eee0", "_expires": "2026-12-23T09:32:00.000Z", "_created": "2026-09-14T09:20:22.000Z", "_published": "2026-09-14T09:32:02.521Z", "_jobs": [ { "job": 103922693048, "time": 139, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "10340722676" }, { "job": 103922693087, "time": 179, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "10341365190" }, { "job": 103922693052, "time": 178, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "10341485475" }, { "job": 103922693058, "time": 144, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "10341281605" }, { "job": 103921818079, "time": 179, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "10340925642" }, { 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"orcid": "0000-0003-2401-0046" }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.0.0", "role": "Depends" }, { "package": "memoise", "role": "Imports" }, { "package": "parallel", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "dplyr", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "gigu003", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-31", "n": 2 }, { "week": "2026-33", "n": 3 } ], "_tags": [], "_stars": 1, "_contributors": [ { "user": "gigu003", "count": 14, "uuid": 19233929 } ], "_userbio": { "uuid": 19233929, "type": "user", "name": "Qiong Chen", "followers": 2 }, "_downloads": { "count": 0, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/ltRISK" }, "_devurl": 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"fields": [ "site", "period", "sex", "ages", "cancer", "death", "cancer_death", "pys" ], "rows": 80, "table": true, "tojson": true } ], "_help": [ { "page": "amp", "title": "Compute probabilities used for estimation of lifetime risk", "topics": [ "amp" ] }, { "page": "calc_ltr", "title": "Estimate disease risk and its confidence interval", "topics": [ "calc_ltr" ] }, { "page": "calc_ltr_df", "title": "Estimate disease risk from a data frame", "topics": [ "calc_ltr_df" ] }, { "page": "clear_ltr_cache", "title": "Manage ltRISK in-memory caches", "topics": [ "clear_ltr_cache", "ltr_cache_info" ] }, { "page": "cumulative", "title": "Calculate cumulative rate and risk.", "topics": [ "cumulative" ] }, { "page": "devcan", "title": "Compute probabilities used for estimation of lifetime risk", "topics": [ "devcan" ] }, { "page": "format_risk_ci", "title": "Format risk estimates with 95% confidence intervals", "topics": [ "format_risk_ci" ] }, { "page": "GCO_Today_2022", "title": "GCO_Today_2022", "topics": [ "GCO_Today_2022" ] }, { "page": "get_risk", "title": "Calculate the risk value for a specific age range", "topics": [ "get_risk", "get_risk.amp", "get_risk.cumu", "get_risk.devcan", "get_risk.wun" ] }, { "page": "pairwise_ztest", "title": "Pairwise Z tests for risk differences among groups", "topics": [ "pairwise_ztest" ] }, { "page": "pmaj", "title": "Smooth a Single Rate Using Piecewise Mid-Age Group Joinpoint (PMAJ) Method", "topics": [ "pmaj" ] }, { "page": "seer_example_data", "title": "Example Cancer Data from SEER", "topics": [ "seer_example_data" ] }, { "page": "trend_test", "title": "Test linear trend in risk across ordered groups", "topics": [ "trend_test" ] }, { "page": "wun", "title": "Compute probabilities used for estimation of lifetime risk", "topics": [ "wun" ] }, { "page": "ztest", "title": "Test the difference in risk between two groups", "topics": [ "ztest", "ztest.data.frame" ] } ], "_pkglogo": "https://github.com/gigu003/ltRISK/raw/HEAD/man/figures/logo.png", "_readme": "https://github.com/gigu003/ltRISK/raw/HEAD/README.md", "_rundeps": [ "cachem", "fastmap", "memoise", "rlang" ], "_vignettes": [ { "source": "use-ltRISK.Rmd", "filename": "use-ltRISK.html", "title": "Estimate lifetime risk of developing or dying from cancer using ltRISK", "author": "Qiong Chen", "engine": "knitr::rmarkdown", "headings": [ "Introduction", "Installation", "Methods", "Overview of available approaches", "Which method should I use?", "Literature and implementation status", "Using ltRISK", "Load the package", "Data preparation", "Example datasets", "Data-frame and tidyverse-style interface", "Rate modeling and confidence intervals", "PMAJ rate modeling", "Why interpolate age-specific rates?", "Confidence intervals", "Sampling assumptions and interpretation", "Gamma confidence intervals", "Delta-method confidence intervals", "Method 1: DevCan method", "Method 2: Wun method", "Method 3: AMP method", 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