{ "_id": "6a1f2ef1b401979e73426bee", "Package": "smashr", "Encoding": "UTF-8", "Type": "Package", "Maintainer": "Peter Carbonetto ", "Authors@R": "c(person(\"Zhengrong\",\"Xing\",role=\"aut\"),\nperson(\"Matthew\",\"Stephens\",role=\"aut\"),\nperson(\"Kaiqian\",\"Zhang\",role=\"ctb\"),\nperson(\"Daniel\",\"Nachun\",role=\"ctb\"),\nperson(\"Guy\",\"Nason\", role=\"cph\"),\nperson(\"Stuart\",\"Barber\",role=\"cph\"),\nperson(\"Tim\",\"Downie\",role=\"cph\"),\nperson(\"Piotr\",\"Frylewicz\",role=\"cph\"),\nperson(\"Arne\",\"Kovac\",role=\"cph\"),\nperson(\"Todd\",\"Ogden\",role=\"cph\"),\nperson(\"Bernard\",\"Silverman\",role=\"cph\"),\nperson(\"Peter\",\"Carbonetto\",role=c(\"aut\",\"cre\"),\nemail=\"pcarbo@uchicago.edu\"))", "Title": "Smoothing by Adaptive Shrinkage", "Version": "1.3-12", "Date": "2025-12-09", "Description": "Fast, wavelet-based Empirical Bayes shrinkage methods for\nsignal denoising, including smoothing Poisson-distributed data\nand Gaussian-distributed data with possibly heteroskedastic\nerror. The algorithms implement the methods described Z. Xing,\nP. Carbonetto & M. Stephens (2021)\n.", "License": "GPL (>= 3)", "Copyright": "file COPYRIGHTS", "NeedsCompilation": "yes", "LazyData": "true", "URL": "https://github.com/stephenslab/smashr", "BugReports": "https://github.com/stephenslab/smashr/issues", "VignetteBuilder": "knitr", "RoxygenNote": "7.3.1", "Repository": "https://stephenslab.r-universe.dev", "Date/Publication": "2025-12-09 16:43:52 UTC", "RemoteUrl": "https://github.com/stephenslab/smashr", "RemoteRef": "HEAD", "RemoteSha": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "Packaged": { "Date": "2026-05-15 09:18:23 UTC", "User": "root" }, "Author": "Zhengrong Xing [aut],\nMatthew Stephens [aut],\nKaiqian Zhang [ctb],\nDaniel Nachun [ctb],\nGuy Nason [cph],\nStuart Barber [cph],\nTim Downie [cph],\nPiotr Frylewicz [cph],\nArne Kovac [cph],\nTodd Ogden [cph],\nBernard Silverman [cph],\nPeter Carbonetto [aut, cre]", "MD5sum": "fd6db335f664edca039e55ab81647865", "_user": "stephenslab", "_type": "src", "_file": "smashr_1.3-12.tar.gz", "_fileid": "b15fcf8cf7d463825c304b290347e9c43d0cca151bd6bd66fe026c86179abb92", "_filesize": 1354675, "_sha256": "b15fcf8cf7d463825c304b290347e9c43d0cca151bd6bd66fe026c86179abb92", "_created": "2026-05-15T09:18:23.000Z", "_published": "2026-06-02T19:28:49.528Z", "_distro": "noble", "_jobs": [ { "job": 79154651853, "time": 151, "config": "linux-devel-arm64", "r": "4.7.0", "check": "OK", "artifact": "7013928427" }, { "job": 79154652012, "time": 168, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7013933636" }, { "job": 79154651778, "time": 156, "config": "linux-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7013930001" }, { "job": 79154652020, "time": 164, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7013932109" }, { "job": 79154651769, "time": 118, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7013918882" }, { "job": 79154651938, "time": 246, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "7013956009" }, { "job": 79154651652, "time": 179, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7013936045" }, { "job": 79154651767, "time": 241, "config": "macos-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7013954804" }, { "job": 79154650934, "time": 1685, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7013884310" }, { "job": 79154650826, "time": 109, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7367766042" }, { "job": 79154651866, "time": 182, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7013937506" }, { "job": 79154651962, "time": 187, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7013940182" }, { "job": 79154651823, "time": 142, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7013925649" } ], "_buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/stephenslab/smashr", "_commit": { "id": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "author": "Peter Carbonetto ", "committer": "Peter Carbonetto ", "message": "Added COPYRIGHTS.\n", "time": 1765298632 }, "_maintainer": { "name": "Peter Carbonetto", "email": "pcarbo@uchicago.edu", "login": "pcarbo", "uuid": 1503904 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.1.1", "role": "Depends" }, { "package": "Rcpp", "role": "LinkingTo" }, { "package": "utils", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "data.table", "role": "Imports" }, { "package": "caTools", "role": "Imports" }, { "package": "wavethresh", "role": "Imports" }, { "package": "ashr", "role": "Imports" }, { "package": "Rcpp", "version": ">= 1.1.0", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "MASS", "role": "Suggests" }, { "package": "EbayesThresh", "role": "Suggests" }, { "package": "testthat", "role": "Suggests" } ], "_owner": "stephenslab", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-47", "n": 8 }, { "week": "2025-48", "n": 7 }, { "week": "2025-49", "n": 1 }, { "week": "2025-50", "n": 2 } ], "_tags": [ { "name": "v1.3-12", "date": "2025-12-09" } ], "_stars": 8, "_contributors": [ { "user": "pcarbo", "count": 96, "uuid": 1503904 }, { "user": "stephens999", "count": 16, "uuid": 1800389 }, { "user": "dongyuexie", "count": 5, "uuid": 26743940 }, { "user": "danielnachun", "count": 4, "uuid": 9205048 }, { "user": "kaiqianzhang", "count": 1, "uuid": 25370607 } ], "_userbio": { "uuid": 5939770, "type": "organization", "name": "Stephens lab", "description": "Research in statistical and computational methods for genetics at the University of Chicago." }, "_downloads": { "count": 149, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/smashr" }, "_devurl": "https://github.com/stephenslab/smashr", "_searchresults": 143, "_topics": [ "cpp" ], "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/readme.html", "extra/readme.md", "extra/smashr.html", "manual.pdf" ], "_homeurl": "https://github.com/stephenslab/smashr", "_realowner": "stephenslab", "_cranurl": true, "_releases": [ { "version": "1.3-12", "date": "2025-12-15" } ], "_exports": [ "glm.approx", "reflect", "reverse.pwave", "sd_estimate_gasser_etal", "smash", "smash.gaus", "smash.poiss", "ti.thresh" ], "_datasets": [ { "name": "treas", "title": "Three-month treasury bill data.", "object": "treas", "class": [ "numeric" ], "fields": [], "table": false, "tojson": true } ], "_help": [ { "page": "glm.approx", "title": "Model fitting using weighted least squares or a GLM approach.", "topics": [ "glm.approx" ] }, { "page": "reflect", "title": "Reflect and extend a vector.", "topics": [ "reflect" ] }, { "page": "reverse.pwave", "title": "Reverse wavelet transform a set of probabilities in TItable format for Poisson data.", "topics": [ "reverse.pwave" ] }, { "page": "sd_estimate_gasser_etal", "title": "Estimate homoskedastic standard deviation from nonparamatric regression.", "topics": [ "sd_estimate_gasser_etal" ] }, { "page": "smash", "title": "Estimate the underlying mean or intensity function from Gaussian or Poisson data, respectively.", "topics": [ "smash" ] }, { "page": "smash.gaus", "title": "Estimate underlying mean function from noisy Gaussian data.", "topics": [ "smash.gaus" ] }, { "page": "smash.poiss", "title": "Estimate the underlying intensity for Poisson counts.", "topics": [ "smash.poiss" ] }, { "page": "smashr", "title": "smashr: Smoothing using Adaptive SHrinkage in R", "topics": [ "smashr-package", "smashr" ] }, { "page": "ti.thresh", "title": "TI thresholding with heteroskedastic errors.", "topics": [ "ti.thresh" ] }, { "page": "treas", "title": "Three-month treasury bill data.", "topics": [ "treas" ] } ], "_readme": "https://github.com/stephenslab/smashr/raw/HEAD/README.md", "_rundeps": [ "ashr", "bitops", "caTools", "data.table", "etrunct", "invgamma", "irlba", "lattice", "MASS", "Matrix", "mixsqp", "Rcpp", "RcppArmadillo", "SQUAREM", "truncnorm", "wavethresh" ], "_sysdeps": [ { "shlib": "libstdc++", "package": "libstdc++6", "source": "gcc", "version": "14.2.0-4ubuntu2~24.04.1", "name": "c++", "homepage": "http://gcc.gnu.org/", "description": "GNU Standard C++ Library v3" } ], "_vignettes": [ { "source": "smashr.Rmd", "filename": "smashr.html", "title": "ASH-based wavelet shrinkage for heteroskedastic models", "engine": "knitr::rmarkdown", "headings": [ "Set up environment", "Preparations", "Constant variance example", "Non-constant variance example", "Estimating the variance function", "Unevenly spaced data", "Unevenly spaced data with constant variance", "Unevenly spaced data with non-constant variance", "Poisson-distributed data example", "Constant variance", "Non-constant variance", "Simulation example from Fan & Yao (1998)", "Treasury Bill example from Fan & Yao (1998)", "Average replicate data", "Heavisine example from Delouille et al (2004)", "Motorcycle example from Delouille et al (2004)", "Session info" ], "created": "2018-05-08 03:31:13", "modified": "2024-07-08 22:23:07", "commits": 12 } ], "_score": 6.961516011448949, "_indexed": true, "_nocasepkg": "smashr", "_universes": [ "stephenslab", "pcarbo" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.3-12", "date": "2026-05-15T09:20:33.000Z", "distro": "noble", "arch": "aarch64", "commit": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "fileid": "3e54c3ed9ecaee17a580119b22a3f4661dc1af870a1245207acbe69bffc61e01", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229" }, { "r": "4.7.0", "os": "linux", "version": "1.3-12", "date": "2026-05-15T09:20:37.000Z", "distro": "noble", "arch": "x86_64", "commit": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "fileid": "8bb7ee34534eb26f9965e85d07e37abd3b945a34b6c628f898e09d73345525f5", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229" }, { "r": "4.6.0", "os": "linux", "version": "1.3-12", "date": "2026-05-15T09:20:40.000Z", "distro": "noble", "arch": "aarch64", "commit": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "fileid": "f70046246b075ee84d70834f945f1775935f74cfab7d45400b42b0853f2455d3", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229" }, { "r": "4.6.0", "os": "linux", "version": "1.3-12", "date": "2026-05-15T09:20:36.000Z", "distro": "noble", "arch": "x86_64", "commit": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "fileid": "2de3cf1c2c22300085821e05894fd9c4477ff8d0cdf0f09e407155f9dabf714c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229" }, { "r": "4.5.3", "os": "mac", "version": "1.3-12", "date": "2026-05-15T09:20:07.000Z", "arch": "aarch64", "commit": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "fileid": "0aea07c731a30c1601beb5d2168f2e2e3a3d92e205a23ef4ac5cb7e7af5ca549", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229" }, { "r": "4.5.3", "os": "mac", "version": "1.3-12", "date": "2026-05-15T09:21:35.000Z", "arch": "x86_64", "commit": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "fileid": "d51bb369e3fd03ca600034d648b583605c60d2b3a748a829041664abb6b2d2d6", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229" }, { "r": "4.6.0", "os": "mac", "version": "1.3-12", "date": "2026-05-15T09:20:41.000Z", "arch": "aarch64", "commit": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "fileid": "33509671d67abf85af35c1cda075c1ac93756c54c1f29b480f67723115db893f", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229" }, { "r": "4.6.0", "os": "mac", "version": "1.3-12", "date": "2026-05-15T09:21:32.000Z", "arch": "x86_64", "commit": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "fileid": "6cfea86de3249cd37075682c6cd3f0c22b22224e3a58309e48ce7260e5b96cfd", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229" }, { "r": "4.7.0", "os": "win", "version": "1.3-12", "date": "2026-05-15T09:19:56.000Z", "arch": "x86_64", "commit": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "fileid": "9e5ec11a9fec2300af734e7aa1092225dff775089b3e51906d486e9e5c28de89", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229" }, { "r": "4.5.3", "os": "win", "version": "1.3-12", "date": "2026-05-15T09:20:33.000Z", "arch": "x86_64", "commit": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "fileid": "d80481f6b6976c9e13ce1fa1d0c13e769376075df2845ff6d561f95ab6017dca", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229" }, { "r": "4.6.0", "os": "win", "version": "1.3-12", "date": "2026-05-15T09:19:45.000Z", "arch": "x86_64", "commit": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "fileid": "035d2837e9645bd5083c466c890b700fe786b933dc7a6b30f90132586d989e51", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229" }, { "r": "4.6.0", "os": "wasm", "version": "1.3-12", "date": "2026-06-02T19:28:28.000Z", "arch": "emscripten", "commit": "e06efa41a3a523833fc0ee743a34cb02da0f26a7", "fileid": "a725d8e6a5a276c62f2996e3b8e9c13a21fab6454a48a6c71f54a0d19f3d25dd", "status": "success", "buildurl": "https://github.com/r-universe/stephenslab/actions/runs/25909049229" } ] }