{ "_id": "6a17fa1bacfb0bcc41da9a4a", "Package": "datafsm", "Title": "Estimating Finite State Machine Models from Data", "Version": "0.2.5", "Date": "2025-11-14", "Authors@R": "c(person(given = c(\"John\", \"J.\"), family = \"Nay\",\nemail = \"john.j.nay@gmail.com\",\nrole = \"aut\"),\nperson(given = c(\"Jonathan\", \"M.\"), family = \"Gilligan\",\nemail = \"jonathan.gilligan@vanderbilt.edu\",\ncomment = c(ORCID = \"0000-0003-1375-6686\"),\nrole = c(\"cre\", \"aut\")))", "Description": "Automatic generation of finite state machine models of\ndynamic decision-making that both have strong predictive power\nand are interpretable in human terms. We use an efficient model\nrepresentation and a genetic algorithm-based estimation process\nto generate simple deterministic approximations that explain\nmost of the structure of complex stochastic processes. We have\napplied the software to empirical data, and demonstrated it's\nability to recover known data-generating processes by\nsimulating data with agent-based models and correctly deriving\nthe underlying decision models for multiple agent models and\ndegrees of stochasticity.", "URL": "https://jonathan-g.github.io/datafsm/,\nhttps://github.com/jonathan-g/datafsm", "BugReports": "https://github.com/jonathan-g/datafsm/issues", "License": "MIT + file LICENSE", "LazyData": "true", "VignetteBuilder": "knitr", "RoxygenNote": "7.3.3", "Encoding": "UTF-8", "Language": "en-US", "Config/pak/sysreqs": "libicu-dev", "Repository": "https://j-magnolia.r-universe.dev", "Date/Publication": "2025-12-01 22:31:08 UTC", "RemoteUrl": "https://github.com/j-magnolia/datafsm", "RemoteRef": "HEAD", "RemoteSha": "099f308daecbba7a6423eea5e389d518169a74df", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-05-28 08:13:04 UTC", "User": "root" }, "Author": "John J. Nay [aut],\nJonathan M. Gilligan [cre, aut] (ORCID:\n)", "Maintainer": "Jonathan M. Gilligan ", "MD5sum": "e0670db2db9d8b5eb9f0200e86a0c937", "_user": "j-magnolia", "_type": "src", "_file": "datafsm_0.2.5.tar.gz", "_fileid": "f2de5555fd9beb838bdcd43d0ad98aea59e35240f28ba539fe6b172dea2ce7ad", "_filesize": 1207688, "_sha256": "f2de5555fd9beb838bdcd43d0ad98aea59e35240f28ba539fe6b172dea2ce7ad", "_created": "2026-05-28T08:13:04.000Z", "_published": "2026-05-28T08:17:31.800Z", "_distro": "noble", "_jobs": [ { "job": 78250534169, "time": 145, "config": "linux-devel-arm64", "r": "4.7.0", "check": "OK", "artifact": "7260953273" }, { "job": 78250534289, "time": 181, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7260964195" }, { "job": 78250534242, "time": 185, "config": "linux-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7260965619" }, { "job": 78250534088, "time": 157, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7260956193" }, { "job": 78250534095, "time": 144, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7260944901" }, { "job": 78250534151, "time": 219, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "7260972564" }, { "job": 78250534093, "time": 127, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7260943095" }, { "job": 78250534098, "time": 206, "config": "macos-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7260968020" }, { "job": 78249920261, "time": 238, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7260906979" }, { "job": 78250534114, "time": 148, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7260953622" }, { "job": 78250534188, "time": 137, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7260951243" }, { "job": 78250534170, "time": 109, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7260941821" }, { "job": 78250534092, "time": 146, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7260952942" } ], "_buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/j-magnolia/datafsm", "_commit": { "id": "099f308daecbba7a6423eea5e389d518169a74df", "author": "Jonathan Gilligan ", "committer": "Jonathan Gilligan ", "message": "Updated cran-comments.md\n", "time": 1764628268 }, "_maintainer": { "name": "Jonathan M. Gilligan", "email": "jonathan.gilligan@vanderbilt.edu", "login": "j-magnolia", "bluesky": "@jgilligan.org", "description": "Environmental scientist. 🏳️‍🌈🏳️‍⚧️", "uuid": 5304060, "orcid": "0000-0003-1375-6686" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.0", "role": "Depends" }, { "package": "methods", "version": ">= 4.0", "role": "Depends" }, { "package": "stats", "version": ">= 4.0", "role": "Depends" }, { "package": "Rcpp", "version": ">= 1.0", "role": "LinkingTo" }, { "package": "caret", "version": ">= 6.0", "role": "Imports" }, { "package": "GA", "version": ">= 3.2", "role": "Imports" }, { "package": "Rcpp", "version": ">= 1.0", "role": "Imports" }, { "package": "doParallel", "version": ">= 1.0", "role": "Suggests" }, { "package": "foreach", "version": ">= 1.5", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0", "role": "Suggests" }, { "package": "diagram", "version": ">= 1.6", "role": "Suggests" }, { "package": "knitr", "version": ">= 1.33", "role": "Suggests" }, { "package": "rmarkdown", "version": ">= 2.8", "role": "Suggests" }, { "package": "pander", "version": ">= 0.6", "role": "Suggests" }, { "package": "dplyr", "version": ">= 1.0", "role": "Suggests" }, { "package": "tidyr", "version": ">= 1.0", "role": "Suggests" }, { "package": "purrr", "version": ">= 0.3", "role": "Suggests" } ], "_owner": "j-magnolia", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-46", "n": 6 }, { "week": "2025-47", "n": 9 }, { "week": "2025-49", "n": 5 } ], "_tags": [], "_topics": [ "machine-learning", "cpp" ], "_stars": 11, "_contributors": [ { "user": "j-magnolia", "count": 180, "uuid": 5304060 }, { "user": "johnnay", "count": 24, "uuid": 8429627 } ], "_userbio": { "uuid": 5304060, "type": "user", "name": "Jonathan Magnolia Gilligan", "description": "Environmental scientist. 🏳️‍🌈🏳️‍⚧️" }, "_downloads": { "count": 200, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/datafsm" }, "_devurl": "https://github.com/jonathan-g/datafsm", "_searchresults": 31, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/datafsm.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/j-magnolia/datafsm", "_realowner": "j-magnolia", "_cranurl": true, "_releases": [ { "version": "0.1.0", "date": "2015-09-07" }, { "version": "0.2.0", "date": "2017-06-17" }, { "version": "0.2.1", "date": "2017-10-20" }, { "version": "0.2.2", "date": "2018-08-08" }, { "version": "0.2.3", "date": "2019-11-28" }, { "version": "0.2.4", "date": "2021-05-30" } ], "_exports": [ "action_vec", "add_interact_num", "barplot", "best_performance", "build_bitstring", "compare_fsm", "decode_action_vec", "decode_state_mat", "degeneracy_check", "dotchart", "estimation_details", "evolve_model", "evolve_model_cv", "evolve_model_ntimes", "find_wildcards", "fitnessCPP", "performance", "plot", "predict", "states", "var_imp", "varImp" ], "_datasets": [ { "name": "NV_games", "title": "Empirical prisoner's dilemma games from Nay and Vorobeychik", "object": "NV_games", "class": [ "data.frame" ], "fields": [ "period", "my.decision", "risk", "delta", "r1", "r2", "error", "data", "my.decision1", "my.decision2", "my.decision3", "my.decision4", "my.decision5", "my.decision6", "my.decision7", "my.decision8", "my.decision9", "other.decision1", "other.decision2", "other.decision3", "other.decision4", "other.decision5", "other.decision6", "other.decision7", "other.decision8", "other.decision9", "my.payoff1", "my.payoff2", "my.payoff3", "my.payoff4", "my.payoff5", "my.payoff6", "my.payoff7", "my.payoff8", "my.payoff9", "other.payoff1", "other.payoff2", "other.payoff3", "other.payoff4", "other.payoff5", "other.payoff6", "other.payoff7", "other.payoff8", "other.payoff9", "r", "s", "t", "p", "infin", "contin", "group" ], "rows": 168386, "table": true, "tojson": true } ], "_help": [ { "page": "action_vec", "title": "Extracts slot of action_vec", "topics": [ "action_vec" ] }, { "page": "add_interact_num", "title": "Add interaction numbers for panel data", "topics": [ "add_interact_num" ] }, { "page": "best_performance", "title": "Extracts performance", "topics": [ "best_performance" ] }, { "page": "build_bitstring", "title": "Builds Bitstring", "topics": [ "build_bitstring" ] }, { "page": "compare_fsm", "title": "Compares FSMs", "topics": [ "compare_fsm" ] }, { "page": "datafsm", "title": "datafsm: A package for estimating FSM models.", "topics": [ "datafsm-package", "datafsm" ] }, { "page": "decode_action_vec", "title": "Decodes Action Vector", "topics": [ "decode_action_vec" ] }, { "page": "decode_state_mat", "title": "Decodes State Matrix", "topics": [ "decode_state_mat" ] }, { "page": "degeneracy_check", "title": "Determines if State Matrix is Degenerate for Given Data Set.", "topics": [ "degeneracy_check" ] }, { "page": "estimation_details", "title": "Extracts slot relevant to estimating the fsm", "topics": [ "estimation_details" ] }, { "page": "evolve_model", "title": "Use a Genetic Algorithm to Estimate a Finite-state Machine Model", "topics": [ "evolve_model" ] }, { "page": "evolve_model_cv", "title": "Estimate Optimal Number of States of a Finite-state Machine Model", "topics": [ "evolve_model_cv" ] }, { "page": "evolve_model_ntimes", "title": "Use a Genetic Algorithm to Estimate a Finite-state Machine Model n-times", "topics": [ "evolve_model_ntimes" ] }, { "page": "find_wildcards", "title": "Find Indices for Non-identifiable Elements of State Matrix.", "topics": [ "find_wildcards" ] }, { "page": "fitnessCPP", "title": "Fitness Function in C++", "topics": [ "fitnessCPP" ] }, { "page": "ga_fsm-class", "title": "An S4 class to return the results of using a GA to estimate a FSM with 'evolve_model'.", "topics": [ "action_vec,ga_fsm-method", "barplot,ga_fsm-method", "best_performance,ga_fsm-method", "dotchart,ga_fsm-method", "estimation_details,ga_fsm-method", "ga_fsm-class", "plot,ga_fsm,ANY-method", "plot,ga_fsm-method", "predict,ga_fsm-method", "print,ga_fsm-method", "show,ga_fsm-method", "states,ga_fsm-method", "summary,ga_fsm-method", "varImp,ga_fsm-method" ] }, { "page": "NV_games", "title": "Empirical prisoner's dilemma games from Nay and Vorobeychik", "topics": [ "NV_games" ] }, { "page": "performance", "title": "Measure Model Performance", "topics": [ "performance" ] }, { "page": "states", "title": "Extracts number of states", "topics": [ "states" ] }, { "page": "var_imp", "title": "Variable Importance Measure for A FSM Model", "topics": [ "var_imp" ] }, { "page": "varImp", "title": "Extracts slot of variable importances", "topics": [ "varImp" ] } ], "_readme": "https://github.com/j-magnolia/datafsm/raw/HEAD/README.md", "_rundeps": [ "caret", "class", "cli", "clock", "codetools", "cpp11", "crayon", "data.table", "diagram", "digest", "dplyr", "e1071", "farver", "foreach", "future", "future.apply", "GA", "generics", "ggplot2", "globals", "glue", "gower", "gtable", "hardhat", "ipred", "isoband", "iterators", "KernSmooth", "labeling", "lattice", "lava", "lifecycle", "listenv", "lubridate", "magrittr", "MASS", "Matrix", "ModelMetrics", "nlme", "nnet", "numDeriv", "parallelly", "pillar", "pkgconfig", "plyr", "pROC", "prodlim", "progressr", "proxy", "purrr", "R6", "RColorBrewer", "Rcpp", "RcppArmadillo", "recipes", "reshape2", "rlang", "rpart", "S7", "scales", "shape", "sparsevctrs", "SQUAREM", "stringi", "stringr", "survival", "tibble", "tidyr", "tidyselect", "timechange", "timeDate", "tzdb", "utf8", "vctrs", "viridisLite", "withr" ], "_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": "FRD_vignette.Rmd", "filename": "FRD_vignette.html", "title": "Example with real data", "author": "John Nay", "engine": "knitr::rmarkdown_notangle", "headings": [ "0.125 0.099 0.165 -15.37", "0.125 0.099 0.165 2", "References" ], "created": "2018-08-05 00:55:35", "modified": "2021-05-25 19:26:19", "commits": 10 }, { "source": "datafsm_introduction.Rmd", "filename": "datafsm_introduction.html", "title": "Introduction to datafsm", "author": "John J. Nay and Jonathan M. Gilligan", "engine": "knitr::rmarkdown", "headings": [ "Abstract", "Introduction", "Fake Data Example", "Documentation for evolve_model", "Acknowledgments", "Session Info" ], "created": "2018-08-05 00:55:35", "modified": "2021-05-25 23:21:03", "commits": 8 } ], "_score": 6.00987563371216, "_indexed": true, "_nocasepkg": "datafsm", "_universes": [ "j-magnolia", "jonathan-g" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.2.5", "date": "2026-05-28T08:15:32.000Z", "distro": "noble", "arch": "aarch64", "commit": "099f308daecbba7a6423eea5e389d518169a74df", "fileid": "25301359046b8c1fb6340bfd4b080c9e459f4135097d379c2a9cf09fac7e7db9", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301" }, { "r": "4.7.0", "os": "linux", "version": "0.2.5", "date": "2026-05-28T08:16:01.000Z", "distro": "noble", "arch": "x86_64", "commit": "099f308daecbba7a6423eea5e389d518169a74df", "fileid": "ec1211392e496ee2a1ae918575a1c2050170b168f1372043ff011ad82aae6983", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301" }, { "r": "4.6.0", "os": "linux", "version": "0.2.5", "date": "2026-05-28T08:16:09.000Z", "distro": "noble", "arch": "aarch64", "commit": "099f308daecbba7a6423eea5e389d518169a74df", "fileid": "58ff6045db7a4579ee381ed1912f32ecf56cd2ff04e3945a1c8ae858e4803014", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301" }, { "r": "4.6.0", "os": "linux", "version": "0.2.5", "date": "2026-05-28T08:15:40.000Z", "distro": "noble", "arch": "x86_64", "commit": "099f308daecbba7a6423eea5e389d518169a74df", "fileid": "cb0487fbfb4af7cc1937ba202860fc4897fbac6a83bb882415d30e9ae8f509ed", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301" }, { "r": "4.5.3", "os": "mac", "version": "0.2.5", "date": "2026-05-28T08:15:11.000Z", "arch": "aarch64", "commit": "099f308daecbba7a6423eea5e389d518169a74df", "fileid": "c2da7b95b5a58f3df7e8c1a46596334ad90a3b80754ee9b1e35f2bd9b699098a", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301" }, { "r": "4.5.3", "os": "mac", "version": "0.2.5", "date": "2026-05-28T08:16:18.000Z", "arch": "x86_64", "commit": "099f308daecbba7a6423eea5e389d518169a74df", "fileid": "e0618337248da485e98659a31068b53fb0a99806dcedd34d7b1eb53b958a73a7", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301" }, { "r": "4.6.0", "os": "mac", "version": "0.2.5", "date": "2026-05-28T08:15:03.000Z", "arch": "aarch64", "commit": "099f308daecbba7a6423eea5e389d518169a74df", "fileid": "e3a4321d8d68005bfdae4a7a074d2a43f44b1bc9dcbef4f9949f746c3e1b018c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301" }, { "r": "4.6.0", "os": "mac", "version": "0.2.5", "date": "2026-05-28T08:15:58.000Z", "arch": "x86_64", "commit": "099f308daecbba7a6423eea5e389d518169a74df", "fileid": "01d23e44d8ed4a812ffe3b97e7d08baa19b93f9c251d3727b99ef0ff34212a58", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301" }, { "r": "4.6.0", "os": "wasm", "version": "0.2.5", "date": "2026-05-28T08:15:51.000Z", "arch": "emscripten", "commit": "099f308daecbba7a6423eea5e389d518169a74df", "fileid": "5d75a71efef1a23abd23d37040c72247ef2cc92698b1e2c78f4c2ca603ed4c64", "status": "success", "buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301" }, { "r": "4.7.0", "os": "win", "version": "0.2.5", "date": "2026-05-28T08:14:43.000Z", "arch": "x86_64", "commit": "099f308daecbba7a6423eea5e389d518169a74df", "fileid": "fde188f5074fcbd55ebab9398aaeec70caeffb9a7c8d3207f5af55a074974f12", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301" }, { "r": "4.5.3", "os": "win", "version": "0.2.5", "date": "2026-05-28T08:14:32.000Z", "arch": "x86_64", "commit": "099f308daecbba7a6423eea5e389d518169a74df", "fileid": "afbc340d75f76303b8da21433006d862217f35ae2ed379876fca2814282b74b0", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301" }, { "r": "4.6.0", "os": "win", "version": "0.2.5", "date": "2026-05-28T08:14:54.000Z", "arch": "x86_64", "commit": "099f308daecbba7a6423eea5e389d518169a74df", "fileid": "56a9b796953475d9d0b13d22f35e331d2701d190b9c6d67eced90bdbea7ebea4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/j-magnolia/actions/runs/26562847301" } ] }