{
  "_id": "6a378b923efcd9bda441a657",
  "Package": "discent",
  "Type": "Package",
  "Title": "Estimation of Deme Inbreeding Spatial Coefficients with Gradient\nDescent",
  "Version": "0.5.0",
  "Authors@R": "as.person(c(\n\"Nick Brazeau <nbrazeau@imperial.ac.uk> [aut, cre]\",\n\"Bob Verity <r.verity@imperial.ac.uk> [aut]\"))",
  "Description": "TODO",
  "License": "MIT + file LICENSE",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "VignetteBuilder": "knitr",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.2.3",
  "SystemRequirements": "C++11",
  "Config/pak/sysreqs": "libicu-dev",
  "Repository": "https://plasmogenepi.r-universe.dev",
  "Date/Publication": "2025-11-25 13:47:22 UTC",
  "RemoteUrl": "https://github.com/nickbrazeau/discent",
  "RemoteRef": "HEAD",
  "RemoteSha": "530970807b6158371e3eabc2ffa9d89b8a46c780",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-06-21 06:51:13 UTC",
    "User": "root"
  },
  "Author": "Nick Brazeau [aut, cre],\nBob Verity [aut]",
  "Maintainer": "Nick Brazeau <nbrazeau@imperial.ac.uk>",
  "MD5sum": "fdb78f05ffd1aa8ea4511f57782083b9",
  "_user": "plasmogenepi",
  "_type": "src",
  "_file": "discent_0.5.0.tar.gz",
  "_fileid": "057ad0119fb28118e0d4f83230f972ec77c94c2e1f5198e8a22741a63476fdfe",
  "_filesize": 345817,
  "_sha256": "057ad0119fb28118e0d4f83230f972ec77c94c2e1f5198e8a22741a63476fdfe",
  "_created": "2026-06-21T06:51:13.000Z",
  "_published": "2026-06-21T06:58:26.975Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 82548965667,
      "time": 141,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7772765048"
    },
    {
      "job": 82548965639,
      "time": 147,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7772765539"
    },
    {
      "job": 82548965638,
      "time": 139,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7772765095"
    },
    {
      "job": 82548965641,
      "time": 147,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7772765479"
    },
    {
      "job": 82548965689,
      "time": 116,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7772761227"
    },
    {
      "job": 82548965687,
      "time": 249,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7772778983"
    },
    {
      "job": 82548965672,
      "time": 98,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7772758746"
    },
    {
      "job": 82548965658,
      "time": 228,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7772775916"
    },
    {
      "job": 82548595460,
      "time": 341,
      "config": "source",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7772746266"
    },
    {
      "job": 82548965617,
      "time": 118,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7772761520"
    },
    {
      "job": 82548965627,
      "time": 122,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7772761951"
    },
    {
      "job": 82548965642,
      "time": 128,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7772762889"
    },
    {
      "job": 82548965628,
      "time": 122,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7772762170"
    }
  ],
  "_buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007",
  "_status": "failure",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/nickbrazeau/discent",
  "_commit": {
    "id": "530970807b6158371e3eabc2ffa9d89b8a46c780",
    "author": "Nicholas Brazeau <nbrazeau1@gmail.com>",
    "committer": "Nicholas Brazeau <nbrazeau1@gmail.com>",
    "message": "drop lambda\n",
    "time": 1764078442
  },
  "_maintainer": {
    "name": "Nick Brazeau",
    "email": "nbrazeau@imperial.ac.uk"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 2.10",
      "role": "Depends"
    },
    {
      "package": "Rcpp",
      "role": "LinkingTo"
    },
    {
      "package": "Rcpp",
      "role": "Imports"
    },
    {
      "package": "dplyr",
      "role": "Imports"
    },
    {
      "package": "magrittr",
      "role": "Imports"
    },
    {
      "package": "tidyr",
      "role": "Imports"
    },
    {
      "package": "purrr",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "crayon",
      "role": "Imports"
    },
    {
      "package": "numDeriv",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Suggests"
    },
    {
      "package": "broom",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 2.1.0",
      "role": "Suggests"
    },
    {
      "package": "tibble",
      "role": "Suggests"
    },
    {
      "package": "covr",
      "role": "Suggests"
    }
  ],
  "_owner": "nickbrazeau",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-27",
      "n": 1
    },
    {
      "week": "2025-38",
      "n": 1
    },
    {
      "week": "2025-46",
      "n": 6
    },
    {
      "week": "2025-47",
      "n": 5
    },
    {
      "week": "2025-48",
      "n": 2
    }
  ],
  "_tags": [],
  "_topics": [
    "gradient-descent",
    "identity-by-descent",
    "spatial",
    "cpp"
  ],
  "_stars": 1,
  "_contributors": [
    {
      "user": "nickbrazeau",
      "count": 107,
      "uuid": 12299990
    }
  ],
  "_userbio": {
    "uuid": 140542976,
    "type": "organization",
    "name": "PlasmoGenEpi",
    "followers": 1,
    "description": "We are a network of scientists who have come together since 2018 to address challenges in malaria genomic epidemiology."
  },
  "_downloads": {
    "count": 0,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/discent"
  },
  "_devurl": "https://github.com/nickbrazeau/discent",
  "_searchresults": 10,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/discent.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "LICENSE"
  ],
  "_cranurl": false,
  "_exports": [
    "%>%",
    "calculate_hessian_eigen",
    "disc",
    "expit",
    "is.DISCresult",
    "logit",
    "rbetabinom",
    "run_forward_disc",
    "tidyout"
  ],
  "_datasets": [
    {
      "name": "IBD_simulation_data",
      "title": "Simulated Identity by Descent Data for DISC Analysis",
      "object": "IBD_simulation_data",
      "class": [
        "tbl_df",
        "tbl",
        "data.frame"
      ],
      "fields": [
        "smpl1",
        "smpl2",
        "deme1",
        "deme2",
        "gendist",
        "geodist"
      ],
      "rows": 33,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "calculate_hessian_eigen",
      "title": "Calculate Hessian Matrix from Loss Function",
      "topics": [
        "calculate_hessian_eigen"
      ]
    },
    {
      "page": "disc",
      "title": "Identify Deme Inbreeding Spatial Coefficients in Continuous Space",
      "topics": [
        "disc"
      ]
    },
    {
      "page": "expit",
      "title": "Expit (Inverse Logit) Transformation",
      "topics": [
        "expit"
      ]
    },
    {
      "page": "IBD_simulation_data",
      "title": "Simulated Identity by Descent Data for DISC Analysis",
      "topics": [
        "IBD_simulation_data"
      ]
    },
    {
      "page": "is.DISCresult",
      "title": "Check if DISCresult S3 Class",
      "topics": [
        "is.DISCresult"
      ]
    },
    {
      "page": "logit",
      "title": "Logit Transformation",
      "topics": [
        "logit"
      ]
    },
    {
      "page": "print.DISCresult",
      "title": "Print DISCresult S3 Class",
      "topics": [
        "print.DISCresult"
      ]
    },
    {
      "page": "rbetabinom",
      "title": "Draw from Beta-binomial distribution",
      "topics": [
        "rbetabinom"
      ]
    },
    {
      "page": "run_forward_disc",
      "title": "DISCent Forward Simulator",
      "topics": [
        "run_forward_disc"
      ]
    },
    {
      "page": "summary.DISCresult",
      "title": "Summary of DISCresult S3 Class",
      "topics": [
        "summary.DISCresult"
      ]
    },
    {
      "page": "tidyout",
      "title": "Tidy Output Generic Method",
      "topics": [
        "tidyout"
      ]
    },
    {
      "page": "tidyout.DISCresult",
      "title": "Tidy DISCresult Output",
      "topics": [
        "tidyout.DISCresult"
      ]
    }
  ],
  "_readme": "https://github.com/nickbrazeau/discent/raw/HEAD/README.md",
  "_rundeps": [
    "cli",
    "cpp11",
    "crayon",
    "dplyr",
    "generics",
    "glue",
    "lifecycle",
    "magrittr",
    "numDeriv",
    "pillar",
    "pkgconfig",
    "purrr",
    "R6",
    "Rcpp",
    "rlang",
    "stringi",
    "stringr",
    "tibble",
    "tidyr",
    "tidyselect",
    "utf8",
    "vctrs",
    "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": "installation.Rmd",
      "filename": "installation.html",
      "title": "Installing discent",
      "engine": "knitr::rmarkdown",
      "headings": [
        "From Github",
        "Dependencies"
      ],
      "created": "2021-01-20 19:30:43",
      "modified": "2021-01-20 19:30:43",
      "commits": 1
    },
    {
      "source": "model_intuition.Rmd",
      "filename": "model_intuition.html",
      "title": "Running the Basic Model",
      "engine": "knitr::rmarkdown",
      "headings": [
        "***"
      ],
      "created": "2025-11-12 02:41:37",
      "modified": "2025-11-20 20:37:37",
      "commits": 2
    },
    {
      "source": "tuning.Rmd",
      "filename": "tuning.html",
      "title": "Hyperparameter Tuning and Sensitivity Analyses",
      "engine": "knitr::rmarkdown",
      "headings": [],
      "created": "2025-11-12 02:41:37",
      "modified": "2025-11-21 19:04:32",
      "commits": 2
    },
    {
      "source": "uncertainty.Rmd",
      "filename": "uncertainty.html",
      "title": "Propagatin Uncertainty",
      "engine": "knitr::rmarkdown",
      "headings": [],
      "created": "2025-11-12 02:41:37",
      "modified": "2025-11-12 02:41:37",
      "commits": 1
    }
  ],
  "_score": 4,
  "_indexed": false,
  "_nocasepkg": "discent",
  "_universes": [
    "plasmogenepi"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.5.0",
      "date": "2026-06-21T06:55:55.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "530970807b6158371e3eabc2ffa9d89b8a46c780",
      "fileid": "30a4d7d8d9c8e73383f48e6f21073a8afa57cbc80918537c93c5e51feee9ad47",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.5.0",
      "date": "2026-06-21T06:55:55.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "530970807b6158371e3eabc2ffa9d89b8a46c780",
      "fileid": "4a92b8575d5b5df215aac34bd14787ada48524d069e70ffa15d0453859098c28",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "0.5.0",
      "date": "2026-06-21T06:55:55.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "530970807b6158371e3eabc2ffa9d89b8a46c780",
      "fileid": "23122f6c832e533f5666436550e6c03db8371e2e8ce11530a574d680a51454e0",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "0.5.0",
      "date": "2026-06-21T06:55:54.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "530970807b6158371e3eabc2ffa9d89b8a46c780",
      "fileid": "d892228f261ab26e4396236df95b6c29d871c1a9bbac67a00ce3a8c9a6aa2ca7",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.5.0",
      "date": "2026-06-21T06:55:29.000Z",
      "arch": "aarch64",
      "commit": "530970807b6158371e3eabc2ffa9d89b8a46c780",
      "fileid": "107fe443aee7d4b5265534e8d5f1734ee01a0e19334bd33d0362584ded8c609f",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.5.0",
      "date": "2026-06-21T06:57:21.000Z",
      "arch": "x86_64",
      "commit": "530970807b6158371e3eabc2ffa9d89b8a46c780",
      "fileid": "c85608332139813ae0d3405ba37d2a81577a4e3bd3d211b8e96264d1039ffa56",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "0.5.0",
      "date": "2026-06-21T06:55:12.000Z",
      "arch": "aarch64",
      "commit": "530970807b6158371e3eabc2ffa9d89b8a46c780",
      "fileid": "445bdb340fa354c7032c1bbecc0cc4359c18375322c6d39b09c3d58c868eb9db",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "0.5.0",
      "date": "2026-06-21T06:56:35.000Z",
      "arch": "x86_64",
      "commit": "530970807b6158371e3eabc2ffa9d89b8a46c780",
      "fileid": "7b832f53624f3e03461868e506905d54a3f0f7f9103d5be9ed083f8bb6b14f7c",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.5.0",
      "date": "2026-06-21T06:55:47.000Z",
      "arch": "emscripten",
      "commit": "530970807b6158371e3eabc2ffa9d89b8a46c780",
      "fileid": "ef5795efab91eedf8b05168ada1b8de63233d289919576526b1718e354f6bf70",
      "status": "success",
      "buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.5.0",
      "date": "2026-06-21T06:55:00.000Z",
      "arch": "x86_64",
      "commit": "530970807b6158371e3eabc2ffa9d89b8a46c780",
      "fileid": "41756e711dc8714e600f98e4fea7bd1b985d4def0ec3a8b142cae404c31b4056",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.5.0",
      "date": "2026-06-21T06:55:01.000Z",
      "arch": "x86_64",
      "commit": "530970807b6158371e3eabc2ffa9d89b8a46c780",
      "fileid": "e5db22a69a9855b2c73a13722acb82370a0e9b3def2d035f6bd071f97c63f7f7",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "0.5.0",
      "date": "2026-06-21T06:54:57.000Z",
      "arch": "x86_64",
      "commit": "530970807b6158371e3eabc2ffa9d89b8a46c780",
      "fileid": "ef9bdf5a65c70a9f56b73ef75f9f7e257dc0d8da4dd74e3d41be737f5d5935fa",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/plasmogenepi/actions/runs/27896380007"
    }
  ]
}