{ "_id": "6ad5c0a7d423e4b0c576c3cf", "Package": "noise", "Type": "Package", "Title": "Estimation of Intrinsic and Extrinsic Noise from Single-Cell\nData", "Version": "1.0.2", "Date": "2024-02-29", "Author": "Audrey Qiuyan Fu and Lior Pachter", "Maintainer": "Audrey Q. Fu ", "Description": "Functions to calculate estimates of intrinsic and\nextrinsic noise from the two-reporter single-cell experiment,\nas in Elowitz, M. B., A. J. Levine, E. D. Siggia, and P. S.\nSwain (2002) Stochastic gene expression in a single cell.\nScience, 297, 1183-1186. Functions implement multiple\nestimators developed for unbiasedness or min Mean Squared Error\n(MSE) in Fu, A. Q. and Pachter, L. (2016). Estimating intrinsic\nand extrinsic noise from single-cell gene expression\nmeasurements. Statistical Applications in Genetics and\nMolecular Biology, 15(6), 447-471.", "License": "GPL (>= 2)", "LazyLoad": "yes", "LazyData": "yes", "Encoding": "UTF-8", "NeedsCompilation": "no", "RoxygenNote": "7.3.1", "Packaged": { "Date": "2026-10-19 06:51:33 UTC", "User": "root" }, "Repository": "https://audreyqyfu.r-universe.dev", "Date/Publication": "2024-03-01 02:36:03 UTC", "RemoteUrl": "https://github.com/cran/noise", "RemoteRef": "HEAD", "RemoteSha": "3f8a41c4db96da92bee141df18a405394a6ae30b", "_user": "audreyqyfu", "_type": "src", "_file": "noise_1.0.2.tar.gz", "_fileid": "https://r2.ropensci.org/840eecd93df14091c5f10188bd6949d26d9ddd7bbbd538cdc4e01babfdd6db5f", "_filesize": 720588, "_sha256": "840eecd93df14091c5f10188bd6949d26d9ddd7bbbd538cdc4e01babfdd6db5f", "_expires": "2027-01-27T07:03:01.000Z", "_created": "2026-10-19T06:51:33.000Z", "_published": "2026-10-19T07:03:03.115Z", "_buildurl": "https://github.com/r-universe/audreyqyfu/actions/runs/39212063092", "_status": "success", "_host": "GitHub-Actions", "_jobs": [ { "job": 117928461550, "time": 90, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "12167812956" }, { "job": 117928461565, "time": 82, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "12168620094" }, { "job": 117928461484, "time": 98, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "12168202993" }, { "job": 117928461692, "time": 148, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "12168686248" }, { "job": 117927552966, "time": 175, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "12167659838" }, { "job": 117928461509, "time": 88, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "12168182450" }, { "job": 117928461579, "time": 59, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "12168107759" }, { "job": 117928461642, "time": 66, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "12168087790" }, { "job": 117928461613, "time": 55, "config": "windows-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "12167862827" } ], "_upstream": "https://github.com/cran/noise", "_commit": { "id": "3f8a41c4db96da92bee141df18a405394a6ae30b", "author": "Audrey Q. Fu ", "committer": "cran-robot ", "message": "version 1.0.2\n", "time": 1709260563 }, "_maintainer": { "name": "Audrey Q. Fu", "email": "audreyqyfu@gmail.com", "login": "audreyqyfu", "description": "Audrey Qiuyan Fu, Associate Professor, Wayne State University School of Medicine. Lab research: statistics, machine learning, genomics", "uuid": 12000393 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.10", "role": "Depends" }, { "package": "preprocessCore", "role": "Imports" } ], "_owner": "cran", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 0, "_contributors": [ { "user": "audreyqyfu", "count": 3, "uuid": 12000393 } ], "_userbio": { "uuid": 12000393, "type": "user", "name": "Audrey Fu", "followers": 23, "description": "Audrey Qiuyan Fu, Associate Professor, Wayne State University School of Medicine. Lab research: statistics, machine learning, genomics" }, "_downloads": { "count": 402, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/noise" }, "_mentions": 1, "_searchresults": 30, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/manual.pdf", "extra/noise.html" ], "_realowner": "audreyqyfu", "_cranurl": false, "_releases": [ { "version": "1.0", "date": "2016-07-28" }, { "version": "1.0.1", "date": "2021-01-08" }, { "version": "1.0.2", "date": "2024-02-29" } ], "_exports": [ "computeExtrinsicNoise", "computeExtrinsicNoiseKnownCor", "computeIntrinsicNoise", "computeNoiseForSubset", "simulateSC" ], "_datasets": [ { "name": "elowitz_data", "title": "Expression of reporter genes in the D22 and M22 E. coli cells from Elowitz et al (2002).", "object": "elowitz_data", "class": [ "list" ], "fields": [], "table": true, "tojson": true }, { "name": "yang_nl10", "title": "Expression of reporter genes in the NL010 E. coli cells from Yang et al (2014).", "object": "yang_nl10", "class": [ "data.frame" ], "fields": [ "CFP", "Venus", "mCherry" ], "rows": 40683, "table": true, "tojson": true } ], "_help": [ { "page": "computeExtrinsicNoise", "title": "Compute estimates of the extrinsic noise.", "topics": [ "computeExtrinsicNoise" ] }, { "page": "computeExtrinsicNoiseKnownCor", "title": "Compute estimates of the extrinsic noise using a known correlation in the min-MSE estimator.", "topics": [ "computeExtrinsicNoiseKnownCor" ] }, { "page": "computeIntrinsicNoise", "title": "Compute estimates of the intrinsic noise.", "topics": [ "computeIntrinsicNoise" ] }, { "page": "computeNoiseForSubset", "title": "Select a random subset of data for noise estimation.", "topics": [ "computeNoiseForSubset" ] }, { "page": "elowitz_data", "title": "Expression of reporter genes in the D22 and M22 E. coli cells from Elowitz et al (2002).", "topics": [ "elowitz_data" ] }, { "page": "simulateSC", "title": "Simulate single-cell expression levels of two reporters", "topics": [ "simulateSC" ] }, { "page": "yang_nl10", "title": "Expression of reporter genes in the NL010 E. coli cells from Yang et al (2014).", "topics": [ "yang_nl10" ] } ], "_rundeps": [ "preprocessCore" ], "_score": 1.4771212547196624, "_indexed": true, "_nocasepkg": "noise", "_universes": [ "audreyqyfu" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.0.2", "date": "2026-10-19T06:53:12.000Z", "distro": "resolute", "commit": "3f8a41c4db96da92bee141df18a405394a6ae30b", "fileid": "https://r2.ropensci.org/02868b41e66b8908d7eaeeffacd2ffadaa62a405765aa5f1238716a010c561bc", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/audreyqyfu/actions/runs/39212063092" }, { "r": "4.6.1", "os": "linux", "version": "1.0.2", "date": "2026-10-19T06:53:04.000Z", "distro": "resolute", "commit": "3f8a41c4db96da92bee141df18a405394a6ae30b", "fileid": "https://r2.ropensci.org/1a8352ba04fcb96e5909e858097957a2dd0d7e135d6b1e4e427d803516d07827", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/audreyqyfu/actions/runs/39212063092" }, { "r": "4.5.3", "os": "mac", "version": "1.0.2", "date": "2026-10-19T06:57:13.000Z", "commit": "3f8a41c4db96da92bee141df18a405394a6ae30b", "fileid": "https://r2.ropensci.org/5fb6cde16b412ecec732fd311e14548f495c525dc818139267d3a1bef95a7692", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/audreyqyfu/actions/runs/39212063092" }, { "r": "4.6.1", "os": "mac", "version": "1.0.2", "date": "2026-10-19T07:02:22.000Z", "commit": "3f8a41c4db96da92bee141df18a405394a6ae30b", "fileid": "https://r2.ropensci.org/a73aef85c18399bc4239e90f52b7e35f13ef127e661e80202670ab674c289335", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/audreyqyfu/actions/runs/39212063092" }, { "r": "4.6.0", "os": "wasm", "version": "1.0.2", "date": "2026-10-19T06:53:17.000Z", "commit": "3f8a41c4db96da92bee141df18a405394a6ae30b", "fileid": "https://r2.ropensci.org/8d5d309bcbb80d2cf602ee74bb67c439116ed8f682d5606556c7105646d868ae", "status": "success", "buildurl": "https://github.com/r-universe/audreyqyfu/actions/runs/39212063092" }, { "r": "4.7.0", "os": "win", "version": "1.0.2", "date": "2026-10-19T06:52:36.000Z", "commit": "3f8a41c4db96da92bee141df18a405394a6ae30b", "fileid": "https://r2.ropensci.org/f5f574e237dde8ebca88eb827c7d37921e3adb015d5c2b160596c5e416de25d4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/audreyqyfu/actions/runs/39212063092" }, { "r": "4.5.3", "os": "win", "version": "1.0.2", "date": "2026-10-19T06:52:43.000Z", "commit": "3f8a41c4db96da92bee141df18a405394a6ae30b", "fileid": "https://r2.ropensci.org/48ecc1c5c520b1868ddab542817a414933c4de98def60c0e2f1ac72c7686e5c7", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/audreyqyfu/actions/runs/39212063092" }, { "r": "4.6.1", "os": "win", "version": "1.0.2", "date": "2026-10-19T06:52:33.000Z", "commit": "3f8a41c4db96da92bee141df18a405394a6ae30b", "fileid": "https://r2.ropensci.org/b9c41af5aeaa99bc12b5a051cf999db33bc8d8fd724b2402f73722c552bd8b7a", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/audreyqyfu/actions/runs/39212063092" } ] }