{ "_id": "6a4799abe06c18f0a6518426", "Package": "EpiNova", "Title": "Flexible Extended State-Space Epidemiological Models with Modern\nInference", "Version": "0.1.0", "Authors@R": "person(\"Subir\", \"Hait\",\nemail = \"haitsubi@msu.edu\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0009-0004-9871-9677\"))", "Description": "An extended epidemiological modelling framework that goes\nbeyond the classical SIR (Susceptible-Infectious-Recovered)\nmodel. Supports SEIR\n(Susceptible-Exposed-Infectious-Recovered), SEIRD\n(Susceptible-Exposed-Infectious-Recovered-Deceased), SVEIRD\n(Susceptible-Vaccinated-Exposed-Infectious-Recovered-Deceased),\nand age-stratified compartmental models with flexible\nintervention functions (spline-based, Gaussian process, or\nuser-defined). Inference is available via maximum likelihood or\nsequential Monte Carlo (SMC, also known as particle filtering)\nwith no external binary dependencies. Includes a\ndependency-free real-time effective reproduction number (Rt)\nestimator, spatial multi-patch models with gravity-model\nmobility, ensemble forecasting via Bayesian model averaging\n(BMA), and proper scoring rules including CRPS (Continuous\nRanked Probability Score), coverage, and MAE (Mean Absolute\nError) for forecast evaluation. Methods follow Anderson and May\n(1991, ISBN:9780198545996), Doucet, de Freitas, and Gordon\n(2001) , Cori et al. (2013)\n, and Gneiting and Raftery (2007)\n.", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.3", "Config/testthat/edition": "3", "VignetteBuilder": "knitr", "URL": "https://github.com/causalfragility-lab/EpiNova", "BugReports": "https://github.com/causalfragility-lab/EpiNova/issues", "Config/pak/sysreqs": "libicu-dev", "Repository": "https://causalfragility-lab.r-universe.dev", "Date/Publication": "2026-04-21 22:47:01 UTC", "RemoteUrl": "https://github.com/causalfragility-lab/epinova", "RemoteRef": "HEAD", "RemoteSha": "eca7c999dbecddebb85f34cb0475af16f88940ba", "NeedsCompilation": "no", "Packaged": { "Date": "2026-07-03 09:26:07 UTC", "User": "root" }, "Author": "Subir Hait [aut, cre] (ORCID: )", "Maintainer": "Subir Hait ", "_user": "causalfragility-lab", "_type": "src", "_file": "EpiNova_0.1.0.tar.gz", "_fileid": "https://r2.ropensci.org/9c3f114232fb5bf8dbca27e228db50642ace5c03e8ad20d7957999ebbb91a110", "_filesize": 83999, "_sha256": "9c3f114232fb5bf8dbca27e228db50642ace5c03e8ad20d7957999ebbb91a110", "_expires": "2026-10-11T11:14:50.000Z", "_created": "2026-07-03T09:26:07.000Z", "_published": "2026-07-03T11:14:51.197Z", "_jobs": [ { "job": 84988097515, "time": 170, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "8062882257" }, { "job": 84988097863, "time": 175, "config": "linux-release-x86_64", "r": "4.6.1", "check": "WARNING", "artifact": "8062884211" }, { "job": 84988097521, "time": 82, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "WARNING", "artifact": "8062851982" }, { "job": 84988097880, "time": 86, "config": "macos-release-arm64", "r": "4.6.1", "check": "WARNING", "artifact": "8062852584" }, { "job": 84988097205, "time": 234, "config": "source", "r": "4.6.1", "check": "ERROR", "artifact": "8062822611" }, { "job": 84988097530, "time": 177, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "8062884736" }, { "job": 84988097850, "time": 98, "config": "windows-devel", "r": "4.7.0", "check": "WARNING", "artifact": "8062856896" }, { "job": 84988097557, "time": 94, "config": "windows-oldrel", "r": "4.5.3", "check": "WARNING", "artifact": "8062856074" }, { "job": 84988097499, "time": 121, "config": "windows-release", "r": "4.6.1", "check": "WARNING", "artifact": "8062865217" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/causalfragility-lab/actions/runs/28651239761", "_status": "failure", "_upstream": "https://github.com/causalfragility-lab/epinova", "_commit": { "id": "eca7c999dbecddebb85f34cb0475af16f88940ba", "author": "Subir Hait <264290991+causalfragility-lab@users.noreply.github.com>", "committer": "Subir Hait <264290991+causalfragility-lab@users.noreply.github.com>", "message": "docs: update cran-comments for resubmission\n", "time": 1776811621 }, "_maintainer": { "name": "Subir Hait", "email": "haitsubi@msu.edu", "login": "causalfragility-lab", "description": "", "uuid": 264290991 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.0.0", "role": "Depends" }, { "package": "deSolve", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "dplyr", "role": "Imports" }, { "package": "tidyr", "role": "Imports" }, { "package": "splines", "role": "Imports" }, { "package": "scales", "role": "Imports" }, { "package": "DEoptim", "role": "Suggests" }, { "package": "MASS", "role": "Suggests" }, { "package": "numDeriv", "role": "Suggests" }, { "package": "rstan", "role": "Suggests" }, { "package": "TMB", "role": "Suggests" }, { "package": "EpiEstim", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "ggpubr", "role": "Suggests" }, { "package": "patchwork", "role": "Suggests" } ], "_owner": "causalfragility-lab", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-17", "n": 7 } ], "_tags": [], "_stars": 0, "_contributors": [ { "user": "causalfragility-lab", "count": 7, "uuid": 264290991 } ], "_userbio": { "uuid": 264290991, "type": "user", "name": "causalfragility-lab", "followers": 4 }, "_downloads": { "count": 445, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/EpiNova" }, "_devurl": "https://github.com/causalfragility-lab/epinova", "_searchresults": 0, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/EpiNova.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "LICENSE", "manual.pdf" ], "_homeurl": "https://github.com/causalfragility-lab/epinova", "_realowner": "causalfragility-lab", "_cranurl": true, "_releases": [ { "version": "0.1.0", "date": "2026-04-22" } ], "_exports": [ "%||%", "build_multipatch_SEIR", "build_phi_pulse", "build_pi_exp", "build_pi_spline", "build_pi_step", "compose_pi", "ensemble_forecast", "estimate_Rt", "estimate_Rt_simple", "fit_mle", "fit_smc", "gp_cov_sqexp", "gravity_mobility", "hubei_covid", "plot_forecast", "plot_multipatch_snapshot", "plot_Rt", "plot_scenarios", "plot_trajectory", "prep_proportions", "project_scenarios", "score_forecast", "solve_model", "solve_multipatch" ], "_help": [], "_readme": "https://github.com/causalfragility-lab/epinova/raw/HEAD/README.md", "_rundeps": [ "cli", "cpp11", "deSolve", "dplyr", "farver", "generics", "ggplot2", "glue", "gtable", "isoband", "labeling", "lifecycle", "magrittr", "pillar", "pkgconfig", "purrr", "R6", "RColorBrewer", "rlang", "S7", "scales", "stringi", "stringr", "tibble", "tidyr", "tidyselect", "utf8", "vctrs", "viridisLite", "withr" ], "_score": 2.6989700043360187, "_indexed": true, "_nocasepkg": "epinova", "_universes": [ "causalfragility-lab" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.1.0", "date": "2026-07-03T09:28:53.000Z", "distro": "resolute", "commit": "eca7c999dbecddebb85f34cb0475af16f88940ba", "fileid": "https://r2.ropensci.org/eded0f6597b6002395a458b68d73fcee5655d7d63e4c67c3489e9510f9443c80", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/causalfragility-lab/actions/runs/28651239761" }, { "r": "4.6.1", "os": "linux", "version": "0.1.0", "date": "2026-07-03T09:28:57.000Z", "distro": "resolute", "commit": "eca7c999dbecddebb85f34cb0475af16f88940ba", "fileid": "https://r2.ropensci.org/3d6935343953efca1fb0ab48ab9f444c43c4f1cd00b8eb5895bf9a20f2de1cb5", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/causalfragility-lab/actions/runs/28651239761" }, { "r": "4.5.3", "os": "mac", "version": "0.1.0", "date": "2026-07-03T09:27:34.000Z", "commit": "eca7c999dbecddebb85f34cb0475af16f88940ba", "fileid": "https://r2.ropensci.org/32403df796d37136093b08a5fc6588f114e437e040156441463ae8d10e24b95d", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/causalfragility-lab/actions/runs/28651239761" }, { "r": "4.6.1", "os": "mac", "version": "0.1.0", "date": "2026-07-03T09:27:34.000Z", "commit": "eca7c999dbecddebb85f34cb0475af16f88940ba", "fileid": "https://r2.ropensci.org/0cb15326320dbf9c7ae0fee06ab5c5e8d8d07ac11d4565faa5e1dc0e9d902fc8", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/causalfragility-lab/actions/runs/28651239761" }, { "r": "4.6.0", "os": "wasm", "version": "0.1.0", "date": "2026-07-03T09:29:19.000Z", "commit": "eca7c999dbecddebb85f34cb0475af16f88940ba", "fileid": "https://r2.ropensci.org/59f6a65bf20ad79dac92f28e9b7811015ffc6a5cfa8ee252893bcb498118430f", "status": "success", "buildurl": "https://github.com/r-universe/causalfragility-lab/actions/runs/28651239761" }, { "r": "4.7.0", "os": "win", "version": "0.1.0", "date": "2026-07-03T09:27:36.000Z", "commit": "eca7c999dbecddebb85f34cb0475af16f88940ba", "fileid": "https://r2.ropensci.org/f39029b1fa45e7940be608ba5bc816da67e8427763b539912af9ad4e27a4b366", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/causalfragility-lab/actions/runs/28651239761" }, { "r": "4.5.3", "os": "win", "version": "0.1.0", "date": "2026-07-03T09:27:33.000Z", "commit": "eca7c999dbecddebb85f34cb0475af16f88940ba", "fileid": "https://r2.ropensci.org/3c48910e0acfacef8705603bcd4630d04a72a097364a81971fc5f35406a43640", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/causalfragility-lab/actions/runs/28651239761" }, { "r": "4.6.1", "os": "win", "version": "0.1.0", "date": "2026-07-03T09:27:56.000Z", "commit": "eca7c999dbecddebb85f34cb0475af16f88940ba", "fileid": "https://r2.ropensci.org/bf9a801b76f4d5d70c5b3f77d5aa483e43c2f3946f8691658d5a709a654c0d28", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/causalfragility-lab/actions/runs/28651239761" } ] }