{ "_id": "6aebf3dd1e2c7b3a4f5356f6", "Package": "lme4", "Version": "2.1-1", "Title": "Linear Mixed-Effects Models using 'Eigen' and S4", "Authors@R": "c(person(\"Douglas\", \"Bates\", role = \"aut\",\ncomment = c(ORCID = \"0000-0001-8316-9503\")),\nperson(\"Martin\", \"Maechler\", role = \"aut\",\ncomment = c(ORCID = \"0000-0002-8685-9910\")),\nperson(\"Ben\", \"Bolker\", role = c(\"cre\", \"aut\"),\nemail = \"bbolker+lme4@gmail.com\",\ncomment = c(ORCID = \"0000-0002-2127-0443\")),\nperson(\"Steven\", \"Walker\", role = \"aut\",\ncomment = c(ORCID = \"0000-0002-4394-9078\")),\nperson(\"Anna\", \"Ly\", role = \"aut\",\ncomment = c(ORCID = \"0000-0002-0210-0342\")),\nperson(\"Mikael\", \"Jagan\", role = \"aut\",\ncomment = c(ORCID = \"0000-0002-3542-2938\")),\nperson(\"Rune Haubo Bojesen\", \"Christensen\", role = \"ctb\",\ncomment = c(ORCID = \"0000-0002-4494-3399\")),\nperson(\"Henrik\", \"Singmann\", role = \"ctb\",\ncomment = c(ORCID = \"0000-0002-4842-3657\")),\nperson(\"Bin\", \"Dai\", role = \"ctb\"),\nperson(\"Fabian\", \"Scheipl\", role = \"ctb\",\ncomment = c(ORCID = \"0000-0001-8172-3603\")),\nperson(\"Gabor\", \"Grothendieck\", role = \"ctb\"),\nperson(\"Peter\", \"Green\", role = \"ctb\",\ncomment = c(ORCID = \"0000-0002-0238-9852\")),\nperson(\"John\", \"Fox\", role = \"ctb\"),\nperson(\"Alexander\", \"Bauer\", role = \"ctb\"),\nperson(\"Pavel N.\", \"Krivitsky\", role = c(\"ctb\", \"cph\"),\ncomment = c(ORCID = \"0000-0002-9101-3362\",\n\"shared copyright on simulate.formula\")),\nperson(\"Emi\", \"Tanaka\", role = \"ctb\",\ncomment = c(ORCID = \"0000-0002-1455-259X\")),\nperson(\"Ross D.\", \"Boylan\", role = \"ctb\",\ncomment = c(ORCID = \"0009-0003-4123-8090\")),\nperson(\"Henrik\", \"Bengtsson\", role = \"ctb\",\ncomment = c(ORCID = \"0000-0002-9280-4430\")))", "Description": "Fit linear and generalized linear mixed-effects models.\nThe models and their components are represented using S4\nclasses and methods. The core computational algorithms are\nimplemented using the 'Eigen' C++ library for numerical linear\nalgebra and 'RcppEigen' \"glue\".", "RdMacros": "Rdpack", "VignetteBuilder": "knitr", "LazyData": "yes", "License": "GPL (>= 2)", "URL": "https://github.com/lme4/lme4/", "BugReports": "https://github.com/lme4/lme4/issues", "Encoding": "UTF-8", "Config/pak/sysreqs": "cmake make", "Repository": "https://lme4.r-universe.dev", "Date/Publication": "2026-11-05 01:30:37 UTC", "RemoteUrl": "https://github.com/lme4/lme4", "RemoteRef": "HEAD", "RemoteSha": "8928890148c9d726db4985354c70008f7c8a74e0", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-11-05 02:57:39 UTC", "User": "root" }, "Author": "Douglas Bates [aut] (ORCID: ),\nMartin Maechler [aut] (ORCID: ),\nBen Bolker [cre, aut] (ORCID: ),\nSteven Walker [aut] (ORCID: ),\nAnna Ly [aut] (ORCID: ),\nMikael Jagan [aut] (ORCID: ),\nRune Haubo Bojesen Christensen [ctb] (ORCID:\n),\nHenrik Singmann [ctb] (ORCID: ),\nBin Dai [ctb],\nFabian Scheipl [ctb] (ORCID: ),\nGabor Grothendieck [ctb],\nPeter Green [ctb] (ORCID: ),\nJohn Fox [ctb],\nAlexander Bauer [ctb],\nPavel N. Krivitsky [ctb, cph] (ORCID:\n, shared copyright on\nsimulate.formula),\nEmi Tanaka [ctb] (ORCID: ),\nRoss D. Boylan [ctb] (ORCID: ),\nHenrik Bengtsson [ctb] (ORCID: )", "Maintainer": "Ben Bolker ", "_user": "lme4", "_type": "src", "_file": "lme4_2.1-1.tar.gz", "_fileid": "https://r2.ropensci.org/d3babdf2c532265ebc77dfe258e14203a1da1ecdb8b5bfbdab0af9abfa0b39b5", "_filesize": 5914162, "_sha256": "d3babdf2c532265ebc77dfe258e14203a1da1ecdb8b5bfbdab0af9abfa0b39b5", "_expires": "2027-02-13T03:11:22.000Z", "_created": "2026-11-05T02:57:39.000Z", "_published": "2026-11-05T03:11:25.021Z", "_upstream": "https://github.com/lme4/lme4", "_status": "success", "_maintainer": { "name": "Ben Bolker", "email": "bbolker+lme4@gmail.com", "login": "bbolker", "description": "", "uuid": 78918, "orcid": "0000-0002-2127-0443" }, "_jobs": [ { "job": 127019408424, "time": 243, "config": "linux-devel-arm64", "r": "4.7.0", "check": "ERROR", "artifact": "13384910167" }, { "job": 127019408388, "time": 281, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "13384044756" }, { "job": 127019408452, "time": 217, "config": "linux-release-arm64", "r": "4.6.2", "check": "ERROR", "artifact": "13384655771" }, { "job": 127019408387, "time": 290, "config": "linux-release-x86_64", "r": "4.6.2", "check": "ERROR", "artifact": "13384900567" }, { "job": 127019408436, "time": 184, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "ERROR", "artifact": "13383949110" }, { "job": 127019408404, "time": 440, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "ERROR", "artifact": "13384009331" }, { "job": 127019408411, "time": 219, "config": "macos-release-arm64", "r": "4.6.2", "check": "ERROR", "artifact": "13384437358" }, { "job": 127019408479, "time": 553, "config": "macos-release-x86_64", "r": "4.6.2", "check": "ERROR", "artifact": "13385285875" }, { "job": 127017489026, "time": 345, "config": "source", "r": "4.6.2", "check": "OK", "artifact": "13384510821" }, { "job": 127019408421, "time": 166, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "13384263702" }, { "job": 127019408463, "time": 463, "config": "windows-devel-arm64", "r": "4.7.0", "check": "ERROR", "artifact": "13385370090" }, { "job": 127019408636, "time": 279, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "13384189262" }, { "job": 127019408457, "time": 311, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "ERROR", "artifact": "13385205144" }, { "job": 127019408501, "time": 450, "config": "windows-release-arm64", "r": "4.6.2", "check": "ERROR", "artifact": "13384930664" }, { "job": 127019408587, "time": 179, "config": "windows-release-x86_64", "r": "4.6.2", "check": "ERROR", "artifact": "13384227890" } ], "_buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874", "_commit": { "id": "8928890148c9d726db4985354c70008f7c8a74e0", "author": "Ben Bolker ", "committer": "GitHub ", "message": "Merge pull request #1016 from Don-Yin/skip-duplicate-cholesky\n\nSkip the duplicate Cholesky update in PIRLS and lmer_dev", "time": 1793842237 }, "_distro": "resolute", "_host": "GitHub-Actions", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.6", "role": "Depends" }, { "package": "Matrix", "role": "Depends" }, { "package": "methods", "role": "Depends" }, { "package": "stats", "role": "Depends" }, { "package": "Matrix", "version": ">= 1.5-0", "role": "LinkingTo" }, { "package": "Rcpp", "version": ">= 1.1.1-1.1", "role": "LinkingTo" }, { "package": "RcppEigen", "version": ">= 0.3.3.9.4", "role": "LinkingTo" }, { "package": "MASS", "role": "Imports" }, { "package": "Rdpack", "role": "Imports" }, { "package": "boot", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "grid", "role": "Imports" }, { "package": "lattice", "role": "Imports" }, { "package": "minqa", "version": ">= 1.1.15", "role": "Imports" }, { "package": "nlme", "version": ">= 3.1-123", "role": "Imports" }, { "package": "nloptr", "version": ">= 1.0.4", "role": "Imports" }, { "package": "parallel", "role": "Imports" }, { "package": "reformulas", "version": ">= 0.4.3.1", "role": "Imports" }, { "package": "splines", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "DHARMa", "role": "Suggests" }, { "package": "HSAUR3", "role": "Suggests" }, { "package": "MEMSS", "role": "Suggests" }, { "package": "car", "role": "Suggests" }, { "package": "dfoptim", "role": "Suggests" }, { "package": "future.apply", "role": "Suggests" }, { "package": "gamm4", "role": "Suggests" }, { "package": "ggplot2", "role": "Suggests" }, { "package": "glmmTMB", "role": "Suggests" }, { "package": "gridExtra", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "merDeriv", "role": "Suggests" }, { "package": "mgcv", "role": "Suggests" }, { "package": "mlmRev", "role": "Suggests" }, { "package": "numDeriv", "role": "Suggests" }, { "package": "optimx", "version": ">= 2013.8.6", "role": "Suggests" }, { "package": "pbkrtest", "role": "Suggests" }, { "package": "performance", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "rr2", "role": "Suggests" }, { "package": "see", "role": "Suggests" }, { "package": "semEff", "role": "Suggests" }, { "package": "statmod", "role": "Suggests" }, { "package": "testthat", "version": ">= 0.8.1", "role": "Suggests" }, { "package": "tibble", "role": "Suggests" } ], "_owner": "lme4", "_selfowned": true, "_usedby": 1772, "_updates": [ { "week": "2025-45", "n": 17 }, { "week": "2025-46", "n": 26 }, { "week": "2025-47", "n": 41 }, { "week": "2025-48", "n": 20 }, { "week": "2025-49", "n": 16 }, { "week": "2025-50", "n": 3 }, { "week": "2025-51", "n": 14 }, { "week": "2025-52", "n": 1 }, { "week": "2026-01", "n": 9 }, { "week": "2026-02", "n": 5 }, { "week": "2026-04", "n": 7 }, { "week": "2026-05", "n": 3 }, { "week": "2026-06", "n": 5 }, { "week": "2026-07", "n": 4 }, { "week": "2026-09", "n": 1 }, { "week": "2026-10", "n": 4 }, { "week": "2026-11", "n": 3 }, { "week": "2026-12", "n": 5 }, { "week": "2026-13", "n": 6 }, { "week": "2026-14", "n": 4 }, { "week": "2026-15", "n": 4 }, { "week": "2026-16", "n": 6 }, { "week": "2026-17", "n": 2 }, { "week": "2026-18", "n": 3 }, { "week": "2026-20", "n": 8 }, { "week": "2026-21", "n": 18 }, { "week": "2026-22", "n": 10 }, { "week": "2026-23", "n": 8 }, { "week": "2026-24", "n": 5 }, { "week": "2026-25", "n": 5 }, { "week": "2026-26", "n": 1 }, { "week": "2026-27", "n": 19 }, { "week": "2026-28", "n": 17 }, { "week": "2026-29", "n": 10 }, { "week": "2026-30", "n": 1 }, { "week": "2026-31", "n": 12 }, { "week": "2026-32", "n": 43 }, { "week": "2026-33", "n": 6 }, { "week": "2026-34", "n": 14 }, { "week": "2026-36", "n": 1 }, { "week": "2026-37", "n": 1 }, { "week": "2026-39", "n": 5 }, { "week": "2026-40", "n": 14 }, { "week": "2026-41", "n": 6 }, { "week": "2026-43", "n": 26 }, { "week": "2026-44", "n": 3 }, { "week": "2026-45", "n": 1 } ], "_tags": [], "_stars": 700, "_contributors": [ { "user": "bbolker", "count": 2209, "uuid": 78918 }, { "user": "mmaechler", "count": 518, "uuid": 995722 }, { "user": "annahuynhly", "count": 210, "uuid": 97189987 }, { "user": "jaganmn", "count": 179, "uuid": 28061575 }, { "user": "dmbates", "count": 28, "uuid": 371258 }, { "user": "henrikbengtsson", "count": 18, "uuid": 1616850 }, { "user": "copilot", "count": 18, "uuid": 198982749 }, { "user": "fabian-s", "count": 16, "uuid": 998541 }, { "user": "rossboylan", "count": 11, "uuid": 2514994 }, { "user": "osorensen", "count": 10, "uuid": 21175639 }, { "user": "siddd-hrr", "count": 9, "uuid": 209251401 }, { "user": "michaelchirico", "count": 9, "uuid": 7606389 }, { "user": "pitakakariki", "count": 8, "uuid": 1023705 }, { "user": "stevencarlislewalker", "count": 5, "uuid": 2754158 }, { "user": "tylermorganwall", "count": 5, "uuid": 297609 }, { "user": "ggrothendieck", "count": 4, "uuid": 7840510 }, { "user": "emitanaka", "count": 4, "uuid": 7620319 }, { "user": "palday", "count": 3, "uuid": 1677783 }, { "user": "mpadge", "count": 2, "uuid": 6697851 }, { "user": "hadley", "count": 2, "uuid": 4196 }, { "user": "sims1253", "count": 2, "uuid": 6530123 }, { "user": "heogden", "count": 2, "uuid": 8266344 }, { "user": "billdenney", "count": 2, "uuid": 10359931 }, { "user": "singmann", "count": 1, "uuid": 1902102 }, { "user": "ifellows", "count": 1, "uuid": 562061 }, { "user": "tappek", "count": 1, "uuid": 77916431 }, { "user": "hdbt", "count": 1, "uuid": 28649284 }, { "user": "davidkretch", "count": 1, "uuid": 4283778 }, { "user": "danstowell", "count": 1, "uuid": 202965 }, { "user": "cfhammill", "count": 1, "uuid": 7467038 }, { "user": "sashahafner", "count": 1, "uuid": 35272876 }, { "user": "nfultz", "count": 1, "uuid": 418638 }, { "user": "lionel-", "count": 1, "uuid": 4465050 }, { "user": "jpritikin", "count": 1, "uuid": 2002771 }, { "user": "jeroen", "count": 1, "uuid": 216319 }, { "user": "don-yin", "count": 1, "uuid": 65135356 }, { "user": "dondelelcaro", "count": 1, "uuid": 1300008 }, { "user": "eddelbuettel", "count": 1, "uuid": 673121 }, { "user": "davharris", "count": 1, "uuid": 843017 }, { "user": "drammock", "count": 1, "uuid": 1810515 }, { "user": "danwkenn", "count": 1, "uuid": 28423056 }, { "user": "wavescholar", "count": 1, "uuid": 2691965 }, { "user": "brendan-r", "count": 1, "uuid": 3510374 } ], "_userbio": { "uuid": 2766860, "type": "organization", "name": "`lme4` R package authors", "followers": 20 }, "_downloads": { "count": 1104375, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/lme4" }, "_mentions": 9267, "_devurl": "https://github.com/lme4/lme4", "_searchresults": 62976, "_topics": [ "cpp" ], "_abi": { "exports": [ { "key": "lme4::Covariance", "hash": "2e9dfb39b812b976" }, { "key": "lme4::Covariance.ar1", "hash": "3a6f49a87956ca8d" }, { "key": "lme4::Covariance.cs", "hash": "b2e6115a2667929b" }, { "key": "lme4::Covariance.diag", "hash": "679eb9b43c76186d" }, { "key": "lme4::Covariance.us", "hash": "923bfaa515ed06ef" }, { "key": "lme4::NelderMead", "hash": "03eb6942c845e659" }, { "key": "lme4::family", "hash": "8976e25124068cb9" }, { "key": "lme4::generic:getL", "hash": "b6aae5725ead04e8" }, { "key": "lme4::generic:getLambda", "hash": "806389c7eeadd95d" }, { "key": "lme4::generic:getLambdat.dp", "hash": "691d9053a10d3767" }, { "key": "lme4::generic:getLambdat.i", "hash": "6cd2292e78afb1b4" }, { "key": "lme4::generic:getLower", "hash": "eb4551f9307203ae" }, { "key": "lme4::generic:getPar", "hash": "298ec6a35b370c67" }, { "key": "lme4::generic:getParLength", "hash": "5d07efa0724d4e50" }, { "key": "lme4::generic:getParNames", "hash": "ce28bd2d88e836ab" }, { "key": "lme4::generic:getProfLower", "hash": "a2f43d3df8de724e" }, { "key": "lme4::generic:getProfPar", "hash": "7affb18c4d88fd8f" }, { "key": "lme4::generic:getProfUpper", "hash": "8f833e23feb3ea52" }, { "key": "lme4::generic:getTheta", "hash": "f57b3a15e0760530" }, { "key": "lme4::generic:getThetaIndex", "hash": "50f3f8b025435c1b" }, { "key": "lme4::generic:getThetaIndexLength", "hash": "b8498c4fddac1106" }, { "key": "lme4::generic:getThetaLength", "hash": "8574d40cb719c39a" }, { "key": "lme4::generic:getThetaNames", "hash": "f7e302354262df19" }, { "key": "lme4::generic:getUpper", "hash": "e50f947f5d337da8" }, { "key": "lme4::generic:getVC", "hash": "4728c8cc6a0a7e2a" }, { "key": "lme4::generic:getVCNames", "hash": "ff53b6be6e0b7b31" }, { "key": "lme4::generic:isSingular", "hash": "2059384b75091a5c" }, { "key": "lme4::generic:setPar", "hash": "4d58d17d032f78f2" }, { "key": "lme4::generic:setProfPar", "hash": "abdbc859cff0c015" }, { "key": "lme4::generic:setTheta", "hash": "e5ada0408d812172" }, { "key": "lme4::generic:setVC", "hash": "10549e7d17ceeb60" }, { "key": "lme4::glmFamily", "hash": "10746996c5f42780" }, { "key": "lme4::glmResp", "hash": "4e364b6856ac2a38" }, { "key": "lme4::glmerMod", "hash": "943660bce5c6e633" }, { "key": "lme4::golden", "hash": "7dfc81f378956df0" }, { "key": "lme4::lmList4", "hash": "a54021ab4e8ff6e3" }, { "key": "lme4::lmList4.confint", "hash": "6a262fe46696deee" }, { "key": "lme4::lmResp", "hash": "d19fbf9100b8a241" }, { "key": "lme4::lmerMod", "hash": "30067661e71ab88f" }, { "key": "lme4::lmerResp", "hash": "cb217bbd5f185657" }, { "key": "lme4::merMod", "hash": "19d0645ca9f68a1c" }, { "key": "lme4::merPredD", "hash": "031b02237673e306" }, { "key": "lme4::nlmerMod", "hash": "b6de8af52ee48b0c" }, { "key": "lme4::nlsResp", "hash": "5bf91fd3a3924d5e" }, { "key": "lme4::rePos", "hash": "0377dca8f5bc62db" }, { "key": "lme4::vcRep", "hash": "bbeb9b8003fd6772" }, { "key": "lme4::vcmat_ar1", "hash": "74282ffc3641988a" }, { "key": "lme4::vcmat_cs", "hash": "20edc1c38d749376" }, { "key": "lme4::vcmat_diag", "hash": "08b55584d032c8e8" }, { "key": "lme4::vcmat_hetar1", "hash": "ddb69e4d01ec968b" }, { "key": "lme4::vcmat_homcs", "hash": "4390fad9db800fdb" }, { "key": "lme4::vcmat_us", "hash": "8377c57f510fcfe2" } ], "imports": [ { "key": "Matrix::cholmod_aat()", "hash": "9c2057c60720fbe5" }, { "key": "Matrix::cholmod_add()", "hash": "0d4270bc26bd6182" }, { "key": "Matrix::cholmod_allocate_dense()", "hash": "0c528739480cad28" }, { "key": "Matrix::cholmod_allocate_factor()", "hash": "ea7ca91397453838" }, { "key": "Matrix::cholmod_allocate_sparse()", "hash": "c3a80c49d532d534" }, { "key": "Matrix::cholmod_allocate_triplet()", "hash": "8b1747a2448ecae7" }, { "key": "Matrix::cholmod_analyze()", "hash": "7a60f85a6a463962" }, { "key": "Matrix::cholmod_analyze_p()", "hash": "f61647a1b37a8428" }, { "key": "Matrix::cholmod_band_inplace()", "hash": "67f5c65d94bf1a8e" }, { "key": "Matrix::cholmod_change_factor()", "hash": "8cad8f0f477c49dc" }, { "key": "Matrix::cholmod_check_common()", "hash": "62fa0429c4c2b408" }, { "key": "Matrix::cholmod_check_dense()", "hash": "2b64ff0cfd4f8806" }, { "key": "Matrix::cholmod_check_factor()", "hash": "a4a4505139a67e0c" }, { "key": "Matrix::cholmod_check_sparse()", "hash": "0addbf2304b62691" }, { "key": "Matrix::cholmod_check_triplet()", "hash": "6113d79f56376869" }, { "key": "Matrix::cholmod_copy()", "hash": "e1b12555a5c91eb1" }, { "key": "Matrix::cholmod_copy_dense()", "hash": "5ab390c678db2ab6" }, { "key": "Matrix::cholmod_copy_factor()", "hash": "cbcf0ae280ed80fa" }, { "key": "Matrix::cholmod_copy_sparse()", "hash": "12c54d0c2faeab1b" }, { "key": "Matrix::cholmod_copy_triplet()", "hash": "68281f6c629599eb" }, { "key": "Matrix::cholmod_defaults()", "hash": "62fa0429c4c2b408" }, { "key": "Matrix::cholmod_dense_as_sexp()", "hash": "64ac65a22c75fcf0" }, { "key": "Matrix::cholmod_dense_to_sparse()", "hash": "55ae24ba29eb88cc" }, { "key": "Matrix::cholmod_factor_as_sexp()", "hash": "7e8fe37c7df76f44" }, { "key": "Matrix::cholmod_factor_ldetA()", "hash": "137ca08c5fcd6394" }, { "key": "Matrix::cholmod_factor_to_sparse()", "hash": "cc727d6c22bacb21" }, { "key": "Matrix::cholmod_factor_update()", "hash": "c19017b86dfb3be4" }, { "key": "Matrix::cholmod_factorize()", "hash": "aa409a2f84a5cbbf" }, { "key": "Matrix::cholmod_factorize_p()", "hash": "0ba05e3f143f1c94" }, { "key": "Matrix::cholmod_finish()", "hash": "62fa0429c4c2b408" }, { "key": "Matrix::cholmod_free_dense()", "hash": "b3d7c4186e078a07" }, { "key": "Matrix::cholmod_free_factor()", "hash": "4acc0fdf5892065c" }, { "key": "Matrix::cholmod_free_sparse()", "hash": "eb6db9940027d2ae" }, { "key": "Matrix::cholmod_free_triplet()", "hash": "262683132cc852f9" }, { "key": "Matrix::cholmod_horzcat()", "hash": "18020cde91d52610" }, { "key": "Matrix::cholmod_nnz()", "hash": "0addbf2304b62691" }, { "key": "Matrix::cholmod_scale()", "hash": "a7b0b18379e035d2" }, { "key": "Matrix::cholmod_sdmult()", "hash": "50f804c603412aa1" }, { "key": "Matrix::cholmod_solve()", "hash": "f5f38b08747d8de7" }, { "key": "Matrix::cholmod_solve2()", "hash": "561d5ca462c92a8a" }, { "key": "Matrix::cholmod_sort()", "hash": "0addbf2304b62691" }, { "key": "Matrix::cholmod_sparse_as_sexp()", "hash": "50baf4f3d1ebced7" }, { "key": "Matrix::cholmod_sparse_to_dense()", "hash": "64f54869192a6a31" }, { "key": "Matrix::cholmod_sparse_to_triplet()", "hash": "3f7f29de522e717f" }, { "key": "Matrix::cholmod_speye()", "hash": "84dbeb525a9ca411" }, { "key": "Matrix::cholmod_spsolve()", "hash": "c8452a0acf32c373" }, { "key": "Matrix::cholmod_ssmult()", "hash": "23d1162b652e30ea" }, { "key": "Matrix::cholmod_start()", "hash": "62fa0429c4c2b408" }, { "key": "Matrix::cholmod_submatrix()", "hash": "c4a498d80608c091" }, { "key": "Matrix::cholmod_transpose()", "hash": "98e81c461310d331" }, { "key": "Matrix::cholmod_triplet_as_sexp()", "hash": "359f6584468918a1" }, { "key": "Matrix::cholmod_triplet_to_sparse()", "hash": "d6b77a17039a0158" }, { "key": "Matrix::cholmod_updown()", "hash": "c45e38cdf55cd1ca" }, { "key": "Matrix::cholmod_vertcat()", "hash": "18020cde91d52610" }, { "key": "Matrix::numeric_as_cholmod_dense()", "hash": "5688b10ef4db25e9" }, { "key": "Matrix::sexp_as_cholmod_dense()", "hash": "070be09133bf9557" }, { "key": "Matrix::sexp_as_cholmod_factor()", "hash": "ea065b1ece35cd96" }, { "key": "Matrix::sexp_as_cholmod_sparse()", "hash": "477ccd8cec554b38" }, { "key": "Matrix::sexp_as_cholmod_triplet()", "hash": "e8109e01410fae6b" }, { "key": "Rcpp::Rcpp_precious_preserve()", "hash": "33a97ea62b293da6" }, { "key": "Rcpp::Rcpp_precious_remove()", "hash": "63d26947ba7e1377" }, { "key": "Rcpp::dataptr()", "hash": "54e69ad2e6668c83" }, { "key": "Rcpp::demangle()", "hash": "b0cfd6754c5ebc4e" }, { "key": "Rcpp::rcpp_get_stack_trace()", "hash": "c684a9bbe15cdc52" }, { "key": "Rcpp::rcpp_set_stack_trace()", "hash": "33a97ea62b293da6" } ] }, "_rbuild": "4.6.2", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/lme4.html", "extra/manual.pdf", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md" ], "_homeurl": "https://github.com/lme4/lme4", "_realowner": "lme4", "_cranurl": true, "_releases": [ { "version": "0.2-1", "date": "2003-06-25" }, { "version": "0.2-2", "date": "2003-07-01" }, { "version": "0.2-3", "date": "2003-07-04" }, { "version": "0.2-4", "date": "2003-07-15" }, { "version": "0.3-1", "date": "2003-07-18" }, { "version": "0.3-2", "date": "2003-07-21" }, { "version": "0.3-3", "date": "2003-07-23" }, { "version": "0.3-4", "date": "2003-08-11" }, { "version": "0.3-5", "date": "2003-08-12" }, { "version": "0.3-6", "date": "2003-08-28" }, { "version": "0.3-7", "date": "2003-09-02" }, { "version": "0.4-3", "date": "2003-10-01" }, { "version": "0.4-4", "date": "2003-10-15" }, { "version": "0.4-7", "date": "2004-01-28" }, { "version": "0.5-2", "date": "2004-04-12" }, { "version": "0.6-1", "date": "2004-06-02" }, { "version": "0.6-2", "date": "2004-06-08" }, { "version": "0.6-3", "date": "2004-07-07" }, { "version": "0.6-4", "date": "2004-07-10" }, { "version": "0.6-5", "date": "2004-09-06" }, { "version": "0.6-6", "date": "2004-09-14" }, { "version": "0.6-7", "date": "2004-09-15" }, { "version": "0.6-9", "date": "2004-10-06" }, { "version": "0.6-10", "date": "2004-12-14" }, { "version": "0.6-11", "date": "2004-12-17" }, { "version": "0.6-12", "date": "2005-01-24" }, { "version": "0.8-1", "date": "2005-01-24" }, { "version": "0.8-2", "date": "2005-01-25" }, { "version": "0.8-3", "date": "2005-02-21" }, { "version": "0.9-1", "date": "2005-02-25" }, { "version": "0.9-2", "date": "2005-02-28" }, { "version": "0.95-1", "date": "2005-04-02" }, { "version": "0.95-3", "date": "2005-04-06" }, { "version": "0.95-4", "date": "2005-04-07" }, { "version": "0.95-5", "date": "2005-04-12" }, { "version": "0.95-6", "date": "2005-04-19" }, { "version": "0.95-7", "date": "2005-05-18" }, { "version": "0.95-8", "date": "2005-05-20" }, { "version": "0.95-9", "date": "2005-05-30" }, { "version": "0.95-10", "date": "2005-05-31" }, { "version": "0.96-1", "date": "2005-06-13" }, { "version": "0.98-1", "date": "2005-07-28" }, { "version": "0.995-1", "date": "2006-01-17" }, { "version": "0.995-2", "date": "2006-01-20" }, { "version": "0.9975-0", "date": "2006-10-03" }, { "version": "0.9975-1", "date": "2006-10-06" }, { "version": "0.9975-3", "date": "2006-10-11" }, { "version": "0.9975-4", "date": "2006-10-15" }, { "version": "0.9975-5", "date": "2006-10-16" }, { "version": "0.9975-6", "date": "2006-10-17" }, { "version": "0.9975-7", "date": "2006-10-19" }, { "version": "0.9975-8", "date": "2006-10-25" }, { "version": "0.9975-9", "date": "2006-11-15" }, { "version": "0.9975-10", "date": "2006-12-02" }, { "version": "0.9975-11", "date": "2007-01-26" }, { "version": "0.9975-12", "date": "2007-01-31" }, { "version": "0.9975-13", "date": "2007-02-11" }, { "version": "0.99875-0", "date": "2007-05-15" }, { "version": "0.99875-1", "date": "2007-06-11" }, { "version": "0.99875-2", "date": "2007-06-21" }, { "version": "0.99875-4", "date": "2007-07-07" }, { "version": "0.99875-5", "date": "2007-07-10" }, { "version": "0.99875-6", "date": "2007-07-10" }, { "version": "0.99875-7", "date": "2007-08-04" }, { "version": "0.99875-8", "date": "2007-09-26" }, { "version": "0.99875-9", "date": "2007-10-14" }, { "version": "0.999375-16", "date": "2008-06-23" }, { "version": "0.999375-17", "date": "2008-06-23" }, { "version": "0.999375-18", "date": "2008-06-25" }, { "version": "0.999375-19", "date": "2008-06-26" }, { "version": "0.999375-20", "date": "2008-06-26" }, { "version": "0.999375-21", "date": "2008-07-11" }, { "version": "0.999375-22", "date": "2008-07-12" }, { "version": "0.999375-23", "date": "2008-07-29" }, { "version": "0.999375-24", "date": "2008-08-06" }, { "version": "0.999375-25", "date": "2008-08-14" }, { "version": "0.999375-26", "date": "2008-08-26" }, { "version": "0.999375-27", "date": "2008-09-28" }, { "version": "0.999375-28", "date": "2008-12-14" }, { "version": "0.999375-30", "date": "2009-05-12" }, { "version": "0.999375-31", "date": "2009-05-24" }, { "version": "0.999375-32", "date": "2009-10-20" }, { "version": "0.999375-33", "date": "2010-04-02" }, { "version": "0.999375-34", "date": "2010-06-29" }, { "version": "0.999375-35", "date": "2010-08-19" }, { "version": "0.999375-36", "date": "2010-10-23" }, { "version": "0.999375-37", "date": "2010-11-10" }, { "version": "0.999375-38", "date": "2011-02-17" }, { "version": "0.999375-39", "date": "2011-03-08" }, { "version": "0.999375-40", "date": "2011-07-23" }, { "version": "0.999375-41", "date": "2011-08-09" }, { "version": "0.999375-42", "date": "2011-10-04" }, { "version": "0.999999-0", "date": "2012-06-23" }, { "version": "0.999999-2", "date": "2013-04-15" }, { "version": "1.0-4", "date": "2013-09-21" }, { "version": "1.0-5", "date": "2013-10-25" }, { "version": "1.0-6", "date": "2014-02-02" }, { "version": "1.1-5", "date": "2014-03-14" }, { "version": "1.1-6", "date": "2014-04-13" }, { "version": "1.1-7", "date": "2014-07-19" }, { "version": "1.1-8", "date": "2015-06-22" }, { "version": "1.1-9", "date": "2015-08-20" }, { "version": "1.1-10", "date": "2015-10-06" }, { "version": "1.1-11", "date": "2016-02-12" }, { "version": "1.1-12", "date": "2016-04-16" }, { "version": "1.1-13", "date": "2017-04-19" }, { "version": "1.1-14", "date": "2017-09-27" }, { "version": "1.1-15", "date": "2017-12-21" }, { "version": "1.1-16", "date": "2018-03-28" }, { "version": "1.1-17", "date": "2018-04-03" }, { "version": "1.1-18-1", "date": "2018-08-17" }, { "version": "1.1-19", "date": "2018-11-10" }, { "version": "1.1-20", "date": "2019-02-04" }, { "version": "1.1-21", "date": "2019-03-08" }, { "version": "1.1-23", "date": "2020-04-07" }, { "version": "1.1-25", "date": "2020-10-23" }, { "version": "1.1-26", "date": "2020-12-01" }, { "version": "1.1-27", "date": "2021-05-15" }, { "version": "1.1-27.1", "date": "2021-06-22" }, { "version": "1.1-28", "date": "2022-02-05" }, { "version": "1.1-29", "date": "2022-04-07" }, { "version": "1.1-30", "date": "2022-07-08" }, { "version": "1.1-31", "date": "2022-11-01" }, { "version": "1.1-32", "date": "2023-03-14" }, { "version": "1.1-33", "date": "2023-04-25" }, { "version": "1.1-34", "date": "2023-07-05" }, { "version": "1.1-35", "date": "2023-11-03" }, { "version": "1.1-35.1", "date": "2023-11-05" }, { "version": "1.1-35.2", "date": "2024-03-28" }, { "version": "1.1-35.3", "date": "2024-04-16" }, { "version": "1.1-35.4", "date": "2024-06-19" }, { "version": "1.1-35.5", "date": "2024-07-03" }, { "version": "1.1-36", "date": "2025-01-11" }, { "version": "1.1-37", "date": "2025-03-26" }, { "version": "1.1-38", "date": "2025-12-02" }, { "version": "2.0-1", "date": "2026-03-05" }, { "version": "2.0-6", "date": "2026-07-16" }, { "version": "2.1-0", "date": "2026-10-23" } ], "_exports": [ ".makeCC", ".prt.aictab", ".prt.call", ".prt.family", ".prt.grps", ".prt.methTit", ".prt.resids", ".prt.VC", ".prt.warn", ".simulateFun", "allFit", "anyStructured", "bootMer", "checkConv", "confint.merMod", "cov2sdcor", "Cv_to_Sv", "Cv_to_Vv", "devcomp", "devfun2", "dotplot.ranef.mer", "dummy", "expandDoubleVerts", "factorize", "findbars", "fixef", "forceNewMerMod", "formatVC", "fortify.merMod", "getData", "getDoublevertDefault", "getL", "getLambda", "getLambdat.dp", "getLambdat.i", "getLower", "getME", "getPar", "getParLength", "getParNames", "getProfLower", "getProfPar", "getProfUpper", "getReCovs", "getSingTol", "getTheta", "getThetaIndex", "getThetaIndexLength", "getThetaLength", "getThetaNames", "getUpper", "getVC", "getVCNames", "GHrule", "glFormula", "glmer", "glmer.nb", "glmerControl", "glmerLaplaceHandle", "glmFamily", "glmResp", "golden", "GQdk", "GQN", "isGLMM", "isLMM", "isNested", "isNewMerMod", "isNLMM", "isREML", "isSingular", "lFormula", "llikAIC", "lme4_testlevel", "lmer", "lmerControl", "lmerResp", "lmList", "lmResp", "logProf", "merPredD", "methTitle", "mkDataTemplate", "mkGlmerDevfun", "mkLmerDevfun", "mkMerMod", "mkNewReTrms", "mkParsTemplate", "mkRespMod", "mkReTrms", "mkVarCorr", "mlist2vec", "namedList", "negative.binomial", "Nelder_Mead", "NelderMead", "ngrps", "nlformula", "nlmer", "nlmerControl", "nlminbwrap", "nloptwrap", "nlsResp", "nobars", "optimizeGlmer", "optimizeLmer", "ranef", "refit", "refitML", "REMLcrit", "reOnly", "rePCA", "rePos", "sdcor2cov", "setPar", "setProfPar", "setTheta", "setVC", "show", "simulate.formula", "subbars", "Sv_to_Cv", "updateGlmerDevfun", "VarCorr", "varianceProf", "vcov.merMod", "vec2mlist", "vec2STlist", "Vv_to_Cv" ], "_datasets": [ { "name": "Arabidopsis", "title": "Arabidopsis clipping/fertilization data", "object": "Arabidopsis", "class": [ "data.frame" ], "fields": [ "reg", "popu", "gen", "rack", "nutrient", "amd", "status", "total.fruits" ], "rows": 625, "table": true, "tojson": true }, { "name": "cake", "title": "Breakage Angle of Chocolate Cakes", "object": "cake", "class": [ "data.frame" ], "fields": [ "replicate", "recipe", "temperature", "angle", "temp" ], "rows": 270, "table": true, "tojson": true }, { "name": "cbpp", "title": "Contagious bovine pleuropneumonia", "object": "cbpp", "class": [ "data.frame" ], "fields": [ "herd", "incidence", "size", "period" ], "rows": 56, "table": true, "tojson": true }, { "name": "cbpp2", "title": "Contagious bovine pleuropneumonia", "object": "cbpp2", "class": [ "data.frame" ], "fields": [ "herd", "treatment", "avg_size", "period", "size", "incidence" ], "rows": 56, "table": true, "tojson": true }, { "name": "culcitalogreg", "title": "Coral-eating seastar Culcita novaeguineae data (binary predation version)", "object": "culcitalogreg", "class": [ "data.frame" ], "fields": [ "block", "ttt", "predation", "ttt.1", "crab", "shrimp", "ttt2", "crab2", "shrimp2" ], "rows": 80, "table": true, "tojson": true }, { "name": "culcitalvolume", "title": "Coral-eating seastar Culcita novaeguineae data (volume loss version)", "object": "culcitalvolume", "class": [ "data.frame" ], "fields": [ "ttt", "volume", "predvolume", "crab", "shrimp", "block", "ttt2" ], "rows": 50, "table": true, "tojson": true }, { "name": "Dyestuff", "title": "Yield of dyestuff by batch", "object": "Dyestuff", "class": [ "data.frame" ], "fields": [ "Batch", "Yield" ], "rows": 30, "table": true, "tojson": true }, { "name": "Dyestuff2", "title": "Yield of dyestuff by batch", "object": "Dyestuff2", "class": [ "data.frame" ], "fields": [ "Batch", "Yield" ], "rows": 30, "table": true, "tojson": true }, { "name": "gopherdat2", "title": "Gopher tortoises shell remains", "object": "gopherdat2", "class": [ "data.frame" ], "fields": [ "Site", "year", "shells", "Area", "density", "prev" ], "rows": 30, "table": true, "tojson": true }, { "name": "grouseticks", "title": "Data on red grouse ticks from Elston et al. 2001", "object": "grouseticks", "class": [ "data.frame" ], "fields": [ "INDEX", "TICKS", "BROOD", "HEIGHT", "YEAR", "LOCATION", "cHEIGHT" ], "rows": 403, "table": true, "tojson": true }, { "name": "grouseticks_agg", "title": "Data on red grouse ticks from Elston et al. 2001", "object": "grouseticks", "class": [ "data.frame" ], "fields": [ "BROOD", "meanTICKS", "varTICKS", "HEIGHT", "YEAR", "LOCATION", "cHEIGHT" ], "rows": 118, "table": true, "tojson": true }, { "name": "InstEval", "title": "University Lecture/Instructor Evaluations by Students at ETH", "object": "InstEval", "class": [ "data.frame" ], "fields": [ "s", "d", "studage", "lectage", "service", "dept", "y" ], "rows": 73421, "table": true, "tojson": true }, { "name": "Pastes", "title": "Paste strength by batch and cask", "object": "Pastes", "class": [ "data.frame" ], "fields": [ "strength", "batch", "cask", "sample" ], "rows": 60, "table": true, "tojson": true }, { "name": "Penicillin", "title": "Variation in penicillin testing", "object": "Penicillin", "class": [ "data.frame" ], "fields": [ "diameter", "plate", "sample" ], "rows": 144, "table": true, "tojson": true }, { "name": "salamander", "title": "Mountain dusky salamander mating", "object": "salamander", "class": [ "data.frame" ], "fields": [ "Season", "Experiment", "TypeM", "TypeF", "Cross", "Male", "Female", "Mate" ], "rows": 360, "table": true, "tojson": true }, { "name": "schizophrenia", "title": "National Institute of Mental Health Schizophrenia Collaborative Study", "object": "schizophrenia", "class": [ "data.frame" ], "fields": [ "id", "imps79", "imps79b", "imps79o", "int", "TxDrug", "Week", "SqrtWeek", "TxSWeek" ], "rows": 1603, "table": true, "tojson": true }, { "name": "sleepstudy", "title": "Reaction times in a sleep deprivation study", "object": "sleepstudy", "class": [ "data.frame" ], "fields": [ "Reaction", "Days", "Subject" ], "rows": 180, "table": true, "tojson": true }, { "name": "toenail", "title": "Toenail onychomycosis data from dermatophyte infections", "object": "toenail", "class": [ "data.frame" ], "fields": [ "patientID", "outcome", "treatment", "time", "visit" ], "rows": 1908, "table": true, "tojson": true }, { "name": "VerbAgg", "title": "Verbal Aggression item responses", "object": "VerbAgg", "class": [ "data.frame" ], "fields": [ "Anger", "Gender", "item", "resp", "id", "btype", "situ", "mode", "r2" ], "rows": 7584, "table": true, "tojson": true } ], "_help": [ { "page": "lme4-package", "title": "Linear, generalized linear, and nonlinear mixed models", "topics": [ "lme4-package", "lme4" ] }, { "page": "allFit", "title": "Refit a fitted model with all available optimizers to check convergence", "topics": [ "allFit" ] }, { "page": "Arabidopsis", "title": "Arabidopsis clipping/fertilization data", "topics": [ "Arabidopsis" ] }, { "page": "bootMer", "title": "Model-based (Semi-)Parametric Bootstrap for Mixed Models", "topics": [ "bootMer" ] }, { "page": "cake", "title": "Breakage Angle of Chocolate Cakes", "topics": [ "cake" ] }, { "page": "cbpp", "title": "Contagious bovine pleuropneumonia", "topics": [ "cbpp", "cbpp2" ] }, { "page": "checkConv", "title": "Extended Convergence Checking", "topics": [ "checkConv" ] }, { "page": "confint.merMod", "title": "Compute Confidence Intervals for Parameters of a [ng]lmer Fit", "topics": [ "confint.merMod", "confint.thpr" ] }, { "page": "convergence", "title": "Assessing Convergence for Fitted Models", "topics": [ "convergence" ] }, { "page": "culcitalogreg", "title": "Coral-eating seastar Culcita novaeguineae data (binary predation version)", "topics": [ "culcitalogreg" ] }, { "page": "culcitalvolume", "title": "Coral-eating seastar Culcita novaeguineae data (volume loss version)", "topics": [ "culcitalvolume" ] }, { "page": "devcomp", "title": "Extract the deviance component list", "topics": [ "devcomp" ] }, { "page": "devfun2", "title": "Deviance Function in Terms of Standard Deviations/Correlations", "topics": [ "devfun2" ] }, { "page": "deviance", "title": "Deviance of Fitted Mixed-Effect Models", "topics": [ "deviance", "deviance.merMod" ] }, { "page": "drop1.merMod", "title": "Drop all possible single fixed-effect terms from a mixed effect model", "topics": [ "drop1.merMod" ] }, { "page": "dummy", "title": "Dummy variables (experimental)", "topics": [ "dummy" ] }, { "page": "Dyestuff", "title": "Yield of dyestuff by batch", "topics": [ "Dyestuff", "Dyestuff2" ] }, { "page": "factorize", "title": "Attempt to convert grouping variables to factors", "topics": [ "factorize" ] }, { "page": "fixef", "title": "Extract fixed-effects estimates", "topics": [ "fixed.effects", "fixef", "fixef.merMod" ] }, { "page": "fortify", "title": "add information to data based on a fitted model", "topics": [ "fortify", "fortify.merMod", "getData", "getData.merMod" ] }, { "page": "getDoublevertDefault", "title": "Retrieve default double-vertical-bar-expansion method", "topics": [ "getDoublevertDefault" ] }, { "page": "getME", "title": "Extract or Get Generalized Components from a Fitted Mixed Effects Model", "topics": [ "getL", "getL,merMod-method", "getME", "getME.merMod" ] }, { "page": "getReCovs", "title": "Extract Fitted Covariance Structures", "topics": [ "getReCovs" ] }, { "page": "GHrule", "title": "Univariate Gauss-Hermite quadrature rule", "topics": [ "GHrule" ] }, { "page": "glmer", "title": "Fitting Generalized Linear Mixed-Effects Models", "concept": [ "GLMM" ], "topics": [ "glmer" ] }, { "page": "glmer.nb", "title": "Fitting Negative Binomial GLMMs", "concept": [ "GLMM" ], "topics": [ "glmer.nb", "negative.binomial" ] }, { "page": "glmerLaplaceHandle", "title": "Handle for 'glmerLaplace'", "topics": [ "glmerLaplaceHandle" ] }, { "page": "glmFamily", "title": "Generator object for the 'glmFamily' class", "topics": [ "glmFamily" ] }, { "page": "glmFamily-class", "title": "Class '\"glmFamily\"' - a reference class for 'family'", "topics": [ "glmFamily-class" ] }, { "page": "golden-class", "title": "Class '\"golden\"' and Generator for Golden Search Optimizer Class", "topics": [ "golden", "golden-class" ] }, { "page": "gopherdat2", "title": "Gopher tortoises shell remains", "topics": [ "gopherdat2" ] }, { "page": "GQdk", "title": "Sparse Gaussian / Gauss-Hermite Quadrature grid", "topics": [ "GQdk", "GQN" ] }, { "page": "grouseticks", "title": "Data on red grouse ticks from Elston et al. 2001", "topics": [ "grouseticks", "grouseticks_agg" ] }, { "page": "hatvalues.merMod", "title": "Diagonal elements of the hat matrix", "topics": [ "hatvalues.merMod" ] }, { "page": "influence.merMod", "title": "Influence Diagnostics for Mixed-Effects Models", "topics": [ "cooks.distance.influence.merMod", "cooks.distance.merMod", "dfbeta.influence.merMod", "dfbetas.influence.merMod", "influence.merMod" ] }, { "page": "InstEval", "title": "University Lecture/Instructor Evaluations by Students at ETH", "topics": [ "InstEval" ] }, { "page": "isNewMerMod", "title": "Test if a 'merMod' Object Has Current Representation", "topics": [ "anyStructured", "forceNewMerMod", "isNewMerMod" ] }, { "page": "isREML", "title": "Check characteristics of models", "topics": [ "isGLMM", "isGLMM.merMod", "isLMM", "isLMM.merMod", "isNLMM", "isNLMM.merMod", "isREML", "isREML.merMod" ] }, { "page": "isSingular", "title": "Test Fitted Model for (Near) Singularity", "concept": [ "boundary" ], "topics": [ "getSingTol", "isSingular", "isSingular,Covariance.ar1-method", "isSingular,Covariance.cs-method", "isSingular,Covariance.diag-method", "isSingular,Covariance.us-method", "isSingular,merMod-method", "isSingular-methods" ] }, { "page": "lme4_testlevel", "title": "Detect testing level for lme4 examples and tests", "topics": [ "lme4_testlevel" ] }, { "page": "lmer", "title": "Fit Linear Mixed-Effects Models", "concept": [ "LMM" ], "topics": [ "lmer" ] }, { "page": "lmerControl", "title": "Control of Mixed Model Fitting", "topics": [ ".makeCC", "glmerControl", "lmerControl", "nlmerControl" ] }, { "page": "lmList", "title": "Fit List of lm or glm Objects with a Common Model", "topics": [ "lmList", "plot.lmList" ] }, { "page": "lmList4-class", "title": "Class \"lmList4\" of 'lm' Objects on Common Model", "topics": [ "lmList4-class", "show,lmList4-method" ] }, { "page": "lmResp", "title": "Generator objects for the response classes", "topics": [ "glmResp", "lmerResp", "lmResp", "nlsResp" ] }, { "page": "lmResp-class", "title": "Reference Classes for Response Modules, '\"(lm|glm|nls|lmer)Resp\"'", "topics": [ "glmResp-class", "lmerResp-class", "lmResp-class", "nlsResp-class" ] }, { "page": "merMod-class", "title": "Class \"merMod\" of Fitted Mixed-Effect Models", "topics": [ "anova.merMod", "as.function.merMod", "coef.merMod", "df.residual.merMod", "extractAIC.merMod", "family.merMod", "fitted.merMod", "formula.merMod", "glmerMod-class", "lmerMod-class", "logLik.merMod", "merMod", "merMod-class", "model.frame.merMod", "model.matrix.merMod", "ngrps.merMod", "nlmerMod-class", "nobs", "nobs.merMod", "print.merMod", "REMLcrit", "show,merMod-method", "show.merMod", "terms.merMod", "update.merMod", "weights.merMod" ] }, { "page": "merPredD", "title": "Generator object for the 'merPredD' class", "topics": [ "merPredD" ] }, { "page": "merPredD-class", "title": "Class '\"merPredD\"' - a Dense Predictor Reference Class", "topics": [ "merPredD-class" ] }, { "page": "mkMerMod", "title": "Create a 'merMod' Object", "topics": [ "mkMerMod" ] }, { "page": "mkNewReTrms", "title": "Make new random effect terms for prediction", "topics": [ "mkNewReTrms" ] }, { "page": "mkRespMod", "title": "Create an lmerResp, glmResp or nlsResp instance", "topics": [ "mkRespMod" ] }, { "page": "mkSimulationTemplate", "title": "Make templates suitable for guiding mixed model simulations", "topics": [ "mkDataTemplate", "mkParsTemplate" ] }, { "page": "mkVarCorr", "title": "Make Variance and Correlation Components of Covariance", "topics": [ "mkVarCorr" ] }, { "page": "modular", "title": "Modular Functions for Mixed Model Fits", "topics": [ "glFormula", "lFormula", "mkGlmerDevfun", "mkLmerDevfun", "modular", "optimizeGlmer", "optimizeLmer", "updateGlmerDevfun" ] }, { "page": "namedList", "title": "Self-naming list function", "topics": [ "namedList" ] }, { "page": "Nelder_Mead", "title": "Nelder-Mead Optimization of Parameters, Possibly (Box) Constrained", "topics": [ "Nelder_Mead" ] }, { "page": "NelderMead-class", "title": "Class '\"NelderMead\"' of Nelder-Mead optimizers and its Generator", "topics": [ "NelderMead", "NelderMead-class" ] }, { "page": "ngrps", "title": "Number of Levels of a Factor or a \"merMod\" Model", "topics": [ "ngrps" ] }, { "page": "nlformula", "title": "Manipulate a Nonlinear Model Formula", "topics": [ "nlformula" ] }, { "page": "nlmer", "title": "Fitting Nonlinear Mixed-Effects Models", "concept": [ "NLMM" ], "topics": [ "nlmer" ] }, { "page": "nloptwrap", "title": "Wrappers for additional optimizers", "topics": [ "nlminbwrap", "nloptwrap" ] }, { "page": "Pastes", "title": "Paste strength by batch and cask", "topics": [ "Pastes" ] }, { "page": "Penicillin", "title": "Variation in penicillin testing", "topics": [ "Penicillin" ] }, { "page": "plot.merMod", "title": "Diagnostic Plots for 'merMod' Fits", "topics": [ "diagnostic.plots", "diagnosticPlots", "diagnostics", "diagnostic_plots", "plot.merMod", "qqmath.merMod", "qqplot" ] }, { "page": "plots.thpr", "title": "Mixed-Effects Profile Plots (Regular / Density / Pairs)", "topics": [ "densityplot.thpr", "splom.thpr", "xyplot.thpr" ] }, { "page": "predict.merMod", "title": "Predictions from a model at new data values", "topics": [ "predict.merMod" ] }, { "page": "profile-methods", "title": "Profile method for merMod objects", "topics": [ "as.data.frame.thpr", "log.thpr", "logProf", "profile-methods", "profile.merMod", "varianceProf" ] }, { "page": "utilities", "title": "Print and Summary Method Utilities for Mixed Effects", "topics": [ ".prt.aictab", ".prt.call", ".prt.family", ".prt.grps", ".prt.methTit", ".prt.resids", ".prt.VC", ".prt.warn", "formatVC", "llikAIC", "methTitle" ] }, { "page": "pvalues", "title": "Getting p-values for fitted models", "topics": [ "mcmcsamp", "pvalues" ] }, { "page": "ranef", "title": "Extract the modes of the random effects", "topics": [ "as.data.frame.ranef.mer", "dotplot.ranef.mer", "qqmath.ranef.mer", "ranef", "ranef.merMod" ] }, { "page": "refit", "title": "Refit a (merMod) Model with a Different Response", "topics": [ "refit", "refit.merMod" ] }, { "page": "refitML", "title": "Refit a Model by Maximum Likelihood Criterion", "topics": [ "refitML", "refitML.merMod" ] }, { "page": "reformulas_imports", "title": "(deprecated) formula-processing functions", "topics": [ "expandDoubleVerts", "findbars", "isNested", "mkReTrms", "nobars", "reOnly", "subbars" ] }, { "page": "rePCA", "title": "PCA of random-effects covariance matrix", "topics": [ "rePCA" ] }, { "page": "rePos", "title": "Generator object for the rePos (random-effects positions) class", "topics": [ "rePos" ] }, { "page": "rePos-class", "title": "Class '\"rePos\"'", "topics": [ "rePos-class" ] }, { "page": "residuals.merMod", "title": "residuals of merMod objects", "topics": [ "residuals.glmResp", "residuals.lmResp", "residuals.merMod" ] }, { "page": "salamander", "title": "Mountain dusky salamander mating", "topics": [ "salamander" ] }, { "page": "schizophrenia", "title": "National Institute of Mental Health Schizophrenia Collaborative Study", "topics": [ "schizophrenia" ] }, { "page": "sigma", "title": "Extract Residual Standard Deviation 'Sigma'", "topics": [ "sigma", "sigma.merMod" ] }, { "page": "simulate.formula", "title": "A 'simulate' Method for 'formula' objects that dispatches based on the Left-Hand Side", "topics": [ "simulate.formula" ] }, { "page": "simulate.merMod", "title": "Simulate Responses From 'merMod' Object", "topics": [ ".simulateFun", "simulate.merMod" ] }, { "page": "sleepstudy", "title": "Reaction times in a sleep deprivation study", "topics": [ "sleepstudy" ] }, { "page": "summary.merMod", "title": "Summary for a [ng]lmer Fit", "topics": [ "print.summary.merMod", "show.summary.merMod", "summary", "summary.merMod" ] }, { "page": "toenail", "title": "Toenail onychomycosis data from dermatophyte infections", "topics": [ "toenail" ] }, { "page": "troubleshooting", "title": "Troubleshooting", "topics": [ "troubleshooting" ] }, { "page": "VarCorr", "title": "Extract Variance and Correlation Components of Covariance", "topics": [ "as.data.frame.VarCorr.merMod", "print.VarCorr.merMod", "VarCorr", "VarCorr.merMod" ] }, { "page": "vcconv", "title": "Convert between representations of (co-)variance structures", "topics": [ "cov2sdcor", "Cv_to_Sv", "Cv_to_Vv", "mlist2vec", "sdcor2cov", "Sv_to_Cv", "vcconv", "vec2mlist", "vec2STlist", "Vv_to_Cv" ] }, { "page": "vcov.merMod", "title": "Covariance matrix of estimated parameters", "topics": [ "vcov.merMod", "vcov.summary.merMod" ] }, { "page": "VerbAgg", "title": "Verbal Aggression item responses", "topics": [ "VerbAgg" ] } ], "_readme": "https://github.com/lme4/lme4/raw/HEAD/README.md", "_rundeps": [ "boot", "lattice", "MASS", "Matrix", "minqa", "nlme", "nloptr", "rbibutils", "Rcpp", "RcppEigen", "Rdpack", "reformulas" ], "_sysdeps": [ { "shlib": "libstdc++", "package": "libstdc++6", "source": "gcc", "version": "16-20260322-1ubuntu1", "name": "c++", "homepage": "http://gcc.gnu.org/", "description": "GNU Standard C++ Library v3" } ], "_vignettes": [ { "source": "autoscale.Rmd", "filename": "autoscale.html", "title": "Autoscaling in lme4", "engine": "knitr::rmarkdown", "headings": [ "Autoscale Mechanism", "References" ], "created": "2025-10-14 02:36:30", "modified": "2025-10-14 02:36:30", "commits": 1 }, { "source": "Theory.Rnw", "filename": "Theory.pdf", "title": "Computational Methods", "engine": "knitr::knitr", "headings": [], "created": "2012-03-15 21:07:38", "modified": "2022-03-15 19:04:03", "commits": 4 }, { "source": "covariance_structures.Rmd", "filename": "covariance_structures.html", "title": "Covariance Structures", "engine": "knitr::rmarkdown", "headings": [ "Introduction", "Background", "Covariance Structures", "Construction of the Relative Co-factor", "Extracting model components", "References" ], "created": "2026-01-03 17:43:58", "modified": "2026-07-11 22:52:36", "commits": 7 }, { "source": "glmer.Rnw", "filename": "glmer.pdf", "title": "Fitting Generalized Linear Mixed-Effects Models using lme4", "engine": "knitr::knitr", "headings": [ "Introduction", "Generalized Linear Mixed Models", "Adaptive Gauss-Hermite quadrature for GLMMs", "Model fitting", "Examples", "Troubleshooting", "Appendix: derivation of PIRLS" ], "created": "2026-05-21 18:42:06", "modified": "2026-08-09 21:49:57", "commits": 32 }, { "source": "lmer.Rnw", "filename": "lmer.pdf", "title": "Fitting Linear Mixed-Effects Models using lme4", "engine": "knitr::knitr", "headings": [ "Introduction", "Formula module", "Objective function module", "Nonlinear optimization module", "Output module", "Conclusion", "Modularization examples" ], "created": "2014-06-18 02:18:41", "modified": "2026-07-15 22:32:55", "commits": 25 }, { "source": "lmerperf.Rmd", "filename": "lmerperf.html", "title": "lme4 performance tips", "engine": "knitr::rmarkdown", "headings": [ "overview", "setting calc.derivs = FALSE", "choice of optimizer", "changing optimizer tolerances", "parallelization/BLAS", "other packages" ], "created": "2014-10-01 19:17:31", "modified": "2022-11-15 16:24:57", "commits": 10 }, { "source": "PLSvGLS.Rnw", "filename": "PLSvGLS.pdf", "title": "PLS vs GLS for LMMs", "engine": "utils::Sweave", "headings": [], "created": "2012-03-15 21:07:38", "modified": "2012-03-15 21:07:38", "commits": 1 } ], "_score": 22.252389844234912, "_indexed": true, "_nocasepkg": "lme4", "_universes": [ "lme4", "bbolker" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "2.1-1", "date": "2026-11-05T03:00:30.000Z", "distro": "resolute", "arch": "aarch64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/6a1f2d301a1d7688031fabe33f63716f2ce99df1cfcdf666cc91f1ac061f41d1", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.7.0", "os": "linux", "version": "2.1-1", "date": "2026-11-05T03:00:53.000Z", "distro": "resolute", "arch": "x86_64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/e86e9b17901632c01eb1a4c140c99f28d3df8852baa7d9e22ba8e8ba14e8f35a", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.6.2", "os": "linux", "version": "2.1-1", "date": "2026-11-05T03:00:21.000Z", "distro": "resolute", "arch": "aarch64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/26cb68444ce77df829e48e33de4a1f7fbb6db387b264e54c7609a03101a31fea", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.6.2", "os": "linux", "version": "2.1-1", "date": "2026-11-05T03:01:00.000Z", "distro": "resolute", "arch": "x86_64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/4aec36096703d6dc4d2356e8b936fb90eeb17eaedb94d17c367bb580961f163c", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.5.3", "os": "mac", "version": "2.1-1", "date": "2026-11-05T03:03:42.000Z", "arch": "aarch64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/ab2ce6d4ecac1487f5f1f6f094ec766a8e8fc5f06d6d1af75b5410942c35fe4e", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.5.3", "os": "mac", "version": "2.1-1", "date": "2026-11-05T03:04:00.000Z", "arch": "x86_64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/f2e392d31e3601a370eddc97fa42b4d04b6f243255744ee560c6ab725ee1aca2", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.6.2", "os": "mac", "version": "2.1-1", "date": "2026-11-05T03:00:46.000Z", "arch": "aarch64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/867fe1424549732d548f21eb0935b81d9083ed2f2c439dd1b1b6eb78eda5f968", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.6.2", "os": "mac", "version": "2.1-1", "date": "2026-11-05T03:05:24.000Z", "arch": "x86_64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/7fc1af9e745150ccb39a845180a0df3da359020a096baa58640cf5f1488460db", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.6.0", "os": "wasm", "version": "2.1-1", "date": "2026-11-05T03:00:53.000Z", "arch": "emscripten", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/5b531e40d467ffe7f87e0f577fbe7b7116108c8fc3ae07467b882e992c19236a", "status": "success", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.7.0", "os": "win", "version": "2.1-1", "date": "2026-11-05T03:03:17.000Z", "arch": "aarch64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/ccbf96a5be6d63bc72d7ee331865cf3eab52bc6ceb939954b30231d2caa8bd12", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.7.0", "os": "win", "version": "2.1-1", "date": "2026-11-05T02:59:34.000Z", "arch": "x86_64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/b938301f679cd4c140950f274344cc966be51ab594430bf79de45db27ea62dda", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.5.3", "os": "win", "version": "2.1-1", "date": "2026-11-05T02:59:46.000Z", "arch": "x86_64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/ccf31a72079f8b7f4794484b804a837f6d80dd02ba5c9cfe37ef24402631186e", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.6.2", "os": "win", "version": "2.1-1", "date": "2026-11-05T03:03:23.000Z", "arch": "aarch64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/1279ac5ba44fb8358a02a32a3881b8e295d542e5b43540fcd5a41eba373bae1f", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" }, { "r": "4.6.2", "os": "win", "version": "2.1-1", "date": "2026-11-05T02:59:28.000Z", "arch": "x86_64", "commit": "8928890148c9d726db4985354c70008f7c8a74e0", "fileid": "https://r2.ropensci.org/ad6d4b082dbea219e34968d824d5bba4b64d62b93e226186e7a4f9ad60c57641", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/lme4/actions/runs/41957995874" } ] }