{
  "_id": "6a269bd524555f66ed51ebf1",
  "Package": "hermione",
  "Title": "Robust estimation of COVID-19 Serial Interval",
  "Version": "1.0.0",
  "Authors@R": "c(person(given = \"Sangeeta\",\nfamily = \"Bhatia\",\nrole = c(\"aut\", \"cre\"),\nemail = \"s.bhatia@imperial.ac.uk\"),\nperson(given = \"Amy\",\nfamily = \"Dighe\",\nrole = c(\"aut\"),\nemail = \"a.dighe16@imperial.ac.uk\"),\nperson(given = \"Kylie E C\",\nfamily = \"Ainslie\",\nrole = c(\"aut\"),\nemail = \"k.ainslie@imperial.ac.uk\"))",
  "Description": "This package implements methods to robustly estimate\nCOVID-19 Serial Interval accounting for biases introduced due\nto isolation of cases.",
  "License": "MIT + file LICENSE",
  "Encoding": "UTF-8",
  "RoxygenNote": "7.1.0",
  "VignetteBuilder": "knitr",
  "Config/pak/sysreqs": "libicu-dev libsodium-dev",
  "Repository": "https://ncov-ic.r-universe.dev",
  "Date/Publication": "2020-08-13 12:25:35 UTC",
  "RemoteUrl": "https://github.com/mrc-ide/hermione",
  "RemoteRef": "master",
  "RemoteSha": "638ff206a30a2ef772bfc3b3e6820e69653162c0",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-08 10:33:27 UTC",
    "User": "root"
  },
  "Author": "Sangeeta Bhatia [aut, cre],\nAmy Dighe [aut],\nKylie E C Ainslie [aut]",
  "Maintainer": "Sangeeta Bhatia <s.bhatia@imperial.ac.uk>",
  "MD5sum": "756493a997bafd760843388497446791",
  "_user": "ncov-ic",
  "_type": "src",
  "_file": "hermione_1.0.0.tar.gz",
  "_fileid": "323ef024557c08d5abd080bb0c0098e3832278c57683ce8516b60bcea0aacd42",
  "_filesize": 330944,
  "_sha256": "323ef024557c08d5abd080bb0c0098e3832278c57683ce8516b60bcea0aacd42",
  "_created": "2026-06-08T10:33:27.000Z",
  "_published": "2026-06-08T10:39:17.326Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 80074409818,
      "time": 115,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "ERROR",
      "artifact": "7477793710"
    },
    {
      "job": 80074409745,
      "time": 118,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7477794915"
    },
    {
      "job": 80074409795,
      "time": 91,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "ERROR",
      "artifact": "7477866901"
    },
    {
      "job": 80074409757,
      "time": 97,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7477852290"
    },
    {
      "job": 80073970486,
      "time": 155,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7477752062"
    },
    {
      "job": 80074409754,
      "time": 109,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7477791580"
    },
    {
      "job": 80074409741,
      "time": 78,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "ERROR",
      "artifact": "7477780769"
    },
    {
      "job": 80074409736,
      "time": 75,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "ERROR",
      "artifact": "7477779480"
    },
    {
      "job": 80074409744,
      "time": 83,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7477782988"
    }
  ],
  "_buildurl": "https://github.com/r-universe/ncov-ic/actions/runs/27131677911",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/mrc-ide/hermione",
  "_commit": {
    "id": "638ff206a30a2ef772bfc3b3e6820e69653162c0",
    "author": "sangeetabhatia03 <sangeetabhatia03@gmail.com>",
    "committer": "sangeetabhatia03 <sangeetabhatia03@gmail.com>",
    "message": "Remove premature rounding\n",
    "time": 1597321535
  },
  "_maintainer": {
    "name": "Sangeeta Bhatia",
    "email": "s.bhatia@imperial.ac.uk"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.5.0",
      "role": "Depends"
    },
    {
      "package": "epitrix",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "covr",
      "role": "Suggests"
    }
  ],
  "_owner": "mrc-ide",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [],
  "_tags": [],
  "_stars": 2,
  "_contributors": [
    {
      "user": "sangeetabhatia03",
      "count": 35,
      "uuid": 15316049
    }
  ],
  "_userbio": {
    "uuid": 60158495,
    "type": "organization",
    "name": "mrc-ide covid response"
  },
  "_downloads": {
    "count": 0,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/hermione"
  },
  "_devurl": "https://github.com/mrc-ide/hermione",
  "_searchresults": 6,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/hermione.html",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_cranurl": false,
  "_exports": [
    "beta_muvar2shape1shape2",
    "beta_shape1shape22muvar",
    "dmbeta",
    "fast_probability_basic",
    "fast_probability_isolation",
    "fast_probability_isolation_offset",
    "fast_probability_offset",
    "pmbeta",
    "probability_basic",
    "probability_isolation",
    "probability_isolation_offset",
    "probability_offset",
    "simulate_si",
    "total_log_likelihood",
    "with_recall_bias"
  ],
  "_help": [
    {
      "page": "beta_muvar2shape1shape2",
      "title": "Reparameterise Beta distributions",
      "topics": [
        "beta_muvar2shape1shape2"
      ]
    },
    {
      "page": "beta_shape1shape22muvar",
      "title": "Reparameterise Beta distributions",
      "topics": [
        "beta_shape1shape22muvar"
      ]
    },
    {
      "page": "dmbeta",
      "title": "Modified beta distribution",
      "topics": [
        "dmbeta"
      ]
    },
    {
      "page": "fast_probability_basic",
      "title": "Probability of serial interval as a convolution of infectiousness distribution of primary case and incubation period of secondary case",
      "topics": [
        "fast_probability_basic"
      ]
    },
    {
      "page": "fast_probability_isolation_offset",
      "title": "Probability of serial interval when primary case has been isolated and in the presence of asymptomatic infectiousness",
      "topics": [
        "fast_probability_isolation_offset"
      ]
    },
    {
      "page": "fast_probability_offset",
      "title": "Probability of serial interval in the presence of asymptomatic infectiousness",
      "topics": [
        "fast_probability_offset"
      ]
    },
    {
      "page": "pmbeta",
      "title": "Modififed beta cumulative probability distribution function",
      "topics": [
        "pmbeta"
      ]
    },
    {
      "page": "probability_basic",
      "title": "Probability of serial interval as a convolution of infectiousness distribution of primary case and incubation period of secondary case",
      "topics": [
        "probability_basic"
      ]
    },
    {
      "page": "probability_isolation",
      "title": "Probability of serial interval",
      "topics": [
        "probability_isolation"
      ]
    },
    {
      "page": "probability_isolation_offset",
      "title": "Probability of serial interval when primary case has been isolated and in the presence of asymptomatic infectiousness",
      "topics": [
        "probability_isolation_offset"
      ]
    },
    {
      "page": "probability_offset",
      "title": "Probability of serial interval with asymptomatic infectiousness",
      "topics": [
        "probability_offset"
      ]
    },
    {
      "page": "simulate_si",
      "title": "Simulate serial interval",
      "topics": [
        "simulate_si"
      ]
    },
    {
      "page": "total_log_likelihood",
      "title": "Total log likelihood",
      "topics": [
        "total_log_likelihood"
      ]
    },
    {
      "page": "with_recall_bias",
      "title": "Probability of observing serial interval taking into account recall bias",
      "topics": [
        "with_recall_bias"
      ]
    }
  ],
  "_readme": "https://github.com/mrc-ide/hermione/raw/master/README.md",
  "_rundeps": [
    "cli",
    "cpp11",
    "distcrete",
    "dplyr",
    "epitrix",
    "generics",
    "glue",
    "lifecycle",
    "magrittr",
    "pillar",
    "pkgconfig",
    "purrr",
    "R6",
    "rlang",
    "sodium",
    "stringi",
    "stringr",
    "tibble",
    "tidyr",
    "tidyselect",
    "utf8",
    "vctrs",
    "withr"
  ],
  "_vignettes": [
    {
      "source": "scenario-1.Rmd",
      "filename": "scenario-1.html",
      "title": "Serial Interval Estimation Accounting for Isolation",
      "engine": "knitr::rmarkdown",
      "headings": [],
      "created": "2020-07-23 12:32:36",
      "modified": "2020-07-23 12:32:36",
      "commits": 1
    }
  ],
  "_score": 3,
  "_indexed": false,
  "_nocasepkg": "hermione",
  "_universes": [
    "ncov-ic"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.0.0",
      "date": "2026-06-08T10:35:19.000Z",
      "distro": "noble",
      "commit": "638ff206a30a2ef772bfc3b3e6820e69653162c0",
      "fileid": "3fdd962917228a286b5f45ba009888143cb02d02f58e9dfb445c699ea635d605",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/ncov-ic/actions/runs/27131677911"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.0.0",
      "date": "2026-06-08T10:35:20.000Z",
      "distro": "noble",
      "commit": "638ff206a30a2ef772bfc3b3e6820e69653162c0",
      "fileid": "6649baf09bc77adb295e52784b148643b9c3f1dff12aff2393bb34c5943d96e5",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/ncov-ic/actions/runs/27131677911"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.0.0",
      "date": "2026-06-08T10:38:51.000Z",
      "commit": "638ff206a30a2ef772bfc3b3e6820e69653162c0",
      "fileid": "a83c4f4e22f41cf0096a1c29ac70f79c193683c20194a36a7105fc0881f090ff",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/ncov-ic/actions/runs/27131677911"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.0.0",
      "date": "2026-06-08T10:38:04.000Z",
      "commit": "638ff206a30a2ef772bfc3b3e6820e69653162c0",
      "fileid": "15621fa82f796fe4a44d24e18e4fe02383db4d6133b5f30e7a5f2f764beaee59",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/ncov-ic/actions/runs/27131677911"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.0.0",
      "date": "2026-06-08T10:35:30.000Z",
      "commit": "638ff206a30a2ef772bfc3b3e6820e69653162c0",
      "fileid": "ccc17ad9612fed4b1a2751040bdccf53ce0aca641ad1078c678e4e636829cee7",
      "status": "success",
      "buildurl": "https://github.com/r-universe/ncov-ic/actions/runs/27131677911"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.0.0",
      "date": "2026-06-08T10:34:36.000Z",
      "commit": "638ff206a30a2ef772bfc3b3e6820e69653162c0",
      "fileid": "7b4b5378df543067860b942f47800a629a468967997043ba7325a07234314586",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/ncov-ic/actions/runs/27131677911"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.0.0",
      "date": "2026-06-08T10:34:33.000Z",
      "commit": "638ff206a30a2ef772bfc3b3e6820e69653162c0",
      "fileid": "98ff152823523f9790e308ac00f732a10a9d4bedc8e3c5115550466311d918a7",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/ncov-ic/actions/runs/27131677911"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.0.0",
      "date": "2026-06-08T10:34:43.000Z",
      "commit": "638ff206a30a2ef772bfc3b3e6820e69653162c0",
      "fileid": "9c9061369b55eccfbd56f5a5130de2e1f78547d46f671e600cce8cce0e4c2543",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/ncov-ic/actions/runs/27131677911"
    }
  ]
}