{ "_id": "6a26831f794753ddbc3f16f9", "Package": "pssmooth", "Type": "Package", "Title": "Flexible and Efficient Evaluation of Principal\nSurrogates/Treatment Effect Modifiers", "Version": "1.0.3", "Authors@R": "person(\"Michal\", \"Juraska\", email = \"mjuraska@fredhutch.org\", role = c(\"aut\", \"cre\"))", "BugReports": "https://github.com/mjuraska/pssmooth/issues", "Description": "Implements estimation and testing procedures for\nevaluating an intermediate biomarker response as a principal\nsurrogate of a clinical response to treatment (i.e., principal\nstratification effect modification analysis), as described in\nJuraska M, Huang Y, and Gilbert PB (2020), Inference on\ntreatment effect modification by biomarker response in a\nthree-phase sampling design, Biostatistics, 21(3): 545-560\n. The methods avoid the\nrestrictive 'placebo structural risk' modeling assumption\ncommon to past methods and further improve robustness by the\nuse of nonparametric kernel smoothing for biomarker density\nestimation. A randomized controlled two-group clinical efficacy\ntrial is assumed with an ordered categorical or continuous\nunivariate biomarker response measured at a fixed timepoint\npost-randomization and with a univariate baseline surrogate\nmeasure allowed to be observed in only a subset of trial\nparticipants with an observed biomarker response (see the\nflexible three-phase sampling design in the paper for details).\nBootstrap-based procedures are available for pointwise and\nsimultaneous confidence intervals and testing of four relevant\nhypotheses. Summary and plotting functions are provided for\nestimation results.", "License": "GPL-2", "URL": "https://github.com/mjuraska/pssmooth", "Encoding": "UTF-8", "RoxygenNote": "7.1.1", "Config/pak/sysreqs": "cmake make", "Repository": "https://mjuraska.r-universe.dev", "Date/Publication": "2020-11-18 01:09:16 UTC", "RemoteUrl": "https://github.com/mjuraska/pssmooth", "RemoteRef": "HEAD", "RemoteSha": "a34c0340f315b9ff5d97e09695e54859267b0288", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-08 08:50:40 UTC", "User": "root" }, "Author": "Michal Juraska [aut, cre]", "Maintainer": "Michal Juraska ", "MD5sum": "ce4d1ffc6b6829fc52b8c565ae3b4053", "_user": "mjuraska", "_type": "src", "_file": "pssmooth_1.0.3.tar.gz", "_fileid": "fa198459486170d5be566ea94ecf196733d27f914f3f339483e69d6366bd6fab", "_filesize": 197203, "_sha256": "fa198459486170d5be566ea94ecf196733d27f914f3f339483e69d6366bd6fab", "_created": "2026-06-08T08:50:40.000Z", "_published": "2026-06-08T08:53:51.744Z", "_distro": "noble", "_jobs": [ { "job": 80056197452, "time": 156, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7475543077" }, { "job": 80056197429, "time": 137, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7475536858" }, { "job": 80056197474, "time": 152, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7475541802" }, { "job": 80056197446, "time": 121, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7475531139" }, { "job": 80055678063, "time": 180, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7475486438" }, { "job": 80056197366, "time": 115, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7475528523" }, { "job": 80056197419, "time": 111, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7475526989" }, { "job": 80056197430, "time": 117, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7475529625" }, { "job": 80056197413, "time": 111, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7475526961" } ], "_buildurl": "https://github.com/r-universe/mjuraska/actions/runs/27126286605", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/mjuraska/pssmooth", "_commit": { "id": "a34c0340f315b9ff5d97e09695e54859267b0288", "author": "Michal Juraska ", "committer": "Michal Juraska ", "message": "This is version 1.0.3 submitted to CRAN after package osDesign was unarchived and posted on CRAN again\n", "time": 1605661756 }, "_maintainer": { "name": "Michal Juraska", "email": "mjuraska@fredhutch.org", "login": "mjuraska", "description": "A biostatistician at Fred Hutch", "uuid": 9420213 }, "_registered": true, "_dependencies": [ { "package": "graphics", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "osDesign", "role": "Imports" }, { "package": "np", "role": "Imports" }, { "package": "chngpt", "role": "Imports" }, { "package": "MASS", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "mjuraska", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 0, "_contributors": [ { "user": "mjuraska", "count": 37, "uuid": 9420213 } ], "_userbio": { "uuid": 9420213, "type": "user", "name": "Michal Juraska", "description": "A biostatistician at Fred Hutch" }, "_downloads": { "count": 164, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/pssmooth" }, "_devurl": "https://github.com/mjuraska/pssmooth", "_searchresults": 9, "_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/pssmooth.html", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/mjuraska/pssmooth", "_realowner": "mjuraska", "_cranurl": true, "_releases": [ { "version": "1.0.0", "date": "2018-07-29" }, { "version": "1.0.1", "date": "2018-09-19" }, { "version": "1.0.2", "date": "2019-01-22" }, { "version": "1.0.3", "date": "2020-11-18" } ], "_exports": [ "bootRiskCurve", "plotMCEPcurve", "riskCurve", "testConstancy", "testEquality" ], "_help": [ { "page": "bootRiskCurve", "title": "Bootstrap Estimation of Conditional Clinical Endpoint Risk under Placebo and Treatment Given Biomarker Response to Treatment in a Baseline Surrogate Measure Three-Phase Sampling Design", "topics": [ "bootRiskCurve" ] }, { "page": "plotMCEPcurve", "title": "Plotting of the Estimated Marginal Causal Effect Predictiveness Curve", "topics": [ "plotMCEPcurve" ] }, { "page": "riskCurve", "title": "Estimation of Conditional Clinical Endpoint Risk under Placebo and Treatment Given Biomarker Response to Treatment in a Baseline Surrogate Measure Three-Phase Sampling Design", "topics": [ "riskCurve" ] }, { "page": "summary.riskCurve", "title": "Summary of Point and Interval Estimation of a Marginal Causal Effect Predictiveness Curve", "topics": [ "summary.riskCurve" ] }, { "page": "testConstancy", "title": "Testing of the Null Hypotheses of a Flat and a Constant Marginal Causal Effect Predictiveness Curve", "topics": [ "testConstancy" ] }, { "page": "testEquality", "title": "Testing of the Null Hypothesis of Equal Marginal Causal Effect Predictiveness Curves for Two Biomarkers, Endpoints, or Baseline Covariate Subgroups", "topics": [ "testEquality" ] } ], "_readme": "https://github.com/mjuraska/pssmooth/raw/HEAD/README.md", "_rundeps": [ "boot", "chngpt", "crs", "cubature", "kyotil", "lattice", "lme4", "MASS", "Matrix", "MatrixModels", "minqa", "nlme", "nloptr", "np", "osDesign", "quadprog", "quantreg", "rbibutils", "Rcpp", "RcppEigen", "Rdpack", "reformulas", "RhpcBLASctl", "rlang", "SparseM", "survival" ], "_score": 2.6989700043360187, "_indexed": true, "_nocasepkg": "pssmooth", "_universes": [ "mjuraska" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.0.3", "date": "2026-06-08T08:52:51.000Z", "distro": "noble", "commit": "a34c0340f315b9ff5d97e09695e54859267b0288", "fileid": "2c76656d3c0cbeab720dfa065ec0c18d8d88552c714b363db7d1b73077c51f09", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mjuraska/actions/runs/27126286605" }, { "r": "4.6.0", "os": "linux", "version": "1.0.3", "date": "2026-06-08T08:52:37.000Z", "distro": "noble", "commit": "a34c0340f315b9ff5d97e09695e54859267b0288", "fileid": "d23e8384fc2b1cd125571cd8056ed682e1c40516a2f2d3a83f349b7411296439", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mjuraska/actions/runs/27126286605" }, { "r": "4.5.3", "os": "mac", "version": "1.0.3", "date": "2026-06-08T08:52:49.000Z", "commit": "a34c0340f315b9ff5d97e09695e54859267b0288", "fileid": "5e987adc6d35a40fa3e148ca422781375d7b1fcacfec09e51fc32c1b4a4f4910", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mjuraska/actions/runs/27126286605" }, { "r": "4.6.0", "os": "mac", "version": "1.0.3", "date": "2026-06-08T08:52:28.000Z", "commit": "a34c0340f315b9ff5d97e09695e54859267b0288", "fileid": "f8ee1fceac814b8a5092da5a5de5b5645d8fd7a443868011e53445e5a0bb3d5a", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mjuraska/actions/runs/27126286605" }, { "r": "4.6.0", "os": "wasm", "version": "1.0.3", "date": "2026-06-08T08:52:52.000Z", "commit": "a34c0340f315b9ff5d97e09695e54859267b0288", "fileid": "70ea4c8da1bf831f6c2096202e57f99c127ad551a79f94b964ac6523f8dc16ac", "status": "success", "buildurl": "https://github.com/r-universe/mjuraska/actions/runs/27126286605" }, { "r": "4.7.0", "os": "win", "version": "1.0.3", "date": "2026-06-08T08:52:02.000Z", "commit": "a34c0340f315b9ff5d97e09695e54859267b0288", "fileid": "cd4b6b1c6c32dfd15922b3b4cd32d58f874fa7aedf315eb4ace01cc68b21cc95", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mjuraska/actions/runs/27126286605" }, { "r": "4.5.3", "os": "win", "version": "1.0.3", "date": "2026-06-08T08:52:06.000Z", "commit": "a34c0340f315b9ff5d97e09695e54859267b0288", "fileid": "4ee590d075e30a070b8d3acfdc38bfcf1ca00cfa913f7f34013f59ababb61ce6", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mjuraska/actions/runs/27126286605" }, { "r": "4.6.0", "os": "win", "version": "1.0.3", "date": "2026-06-08T08:51:58.000Z", "commit": "a34c0340f315b9ff5d97e09695e54859267b0288", "fileid": "daa12698d4dae5c9d5583d5e9a59487446501718dd1e849ecc66bcba8f079b24", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mjuraska/actions/runs/27126286605" } ] }