{
  "_id": "6a1b62871d7bb097a0a11d6f",
  "Package": "tidygenclust",
  "Title": "Clustering for Population Genetics in R",
  "Version": "0.1.1",
  "Authors@R": "c(\nperson(\"Eirlys\", \"Tysall\", role = c(\"aut\")),\nperson(\"Anahit\", \"Hovhannisyan\", role = c(\"aut\")),\nperson(\"Evie\", \"Carter\", role = c(\"aut\")),\nperson(\"Andrea\", \"Pozzi\", role = c(\"aut\")),\nperson(\"Cecilia\", \"Padilla-Iglesias\", role =  c(\"aut\")),\nperson(\"Michela\", \"Leonardi\", role = c(\"aut\")),\nperson(\"Aramish\", \"Fatima\", role = c(\"aut\")),\nperson(\"Ondrej\", \"Pelanek\", role = c(\"aut\")),\nperson(\"Nile\", \"Stephenson\", role = c(\"aut\")),\nperson(\"Margherita\", \"Colucci\", role = c(\"aut\")),\nperson(\"Andrea\", \"Manica\", , \"am315@cam.ac.uk\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0003-1895-450X\"))\n)",
  "Description": "A tidy interface to clustering in population genetics.\nThis package provides a set of functions to perform clustering\non genetic data, and to visualize the results, both for single\nruns and for multiple repeats of the same analysis.\n'tidygenclust' ports the 'fastmixture' and 'clumppling' python\nmodules to R, and it is built on top of the 'tidypopgen'\npackage. Currently it works only on Linux and OSX (you can use\nthe WSL on Windows).",
  "License": "GPL (>= 3)",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE)",
  "LazyData": "true",
  "VignetteBuilder": "knitr",
  "Config/testthat/edition": "3",
  "Config/roxygen2/version": "8.0.0",
  "Config/pak/sysreqs": "libabsl-dev cmake libgdal-dev gdal-bin libgeos-dev\nlibicu-dev libpng-dev libssl-dev libproj-dev python3\nlibsqlite3-dev libudunits2-dev zlib1g-dev",
  "Repository": "https://evolecolgroup.r-universe.dev",
  "Date/Publication": "2026-05-30 21:28:12 UTC",
  "RemoteUrl": "https://github.com/EvolEcolGroup/tidygenclust",
  "RemoteRef": "main",
  "RemoteSha": "36122fa6bac3b185f5234c659a823f002f0cbfc3",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-30 22:00:50 UTC",
    "User": "root"
  },
  "Author": "Eirlys Tysall [aut],\nAnahit Hovhannisyan [aut],\nEvie Carter [aut],\nAndrea Pozzi [aut],\nCecilia Padilla-Iglesias [aut],\nMichela Leonardi [aut],\nAramish Fatima [aut],\nOndrej Pelanek [aut],\nNile Stephenson [aut],\nMargherita Colucci [aut],\nAndrea Manica [aut, cre] (ORCID:\n<https://orcid.org/0000-0003-1895-450X>)",
  "Maintainer": "Andrea Manica <am315@cam.ac.uk>",
  "MD5sum": "d3c587f786c993ecb35c0fea70ee99e1",
  "_user": "evolecolgroup",
  "_type": "src",
  "_file": "tidygenclust_0.1.1.tar.gz",
  "_fileid": "0b5bce27b449234ad67d683df3aa96ecd61b0eabd4052fdd099549cffd34f777",
  "_filesize": 2727089,
  "_sha256": "0b5bce27b449234ad67d683df3aa96ecd61b0eabd4052fdd099549cffd34f777",
  "_created": "2026-05-30T22:00:50.000Z",
  "_published": "2026-05-30T22:19:51.950Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 78680662210,
      "time": 1100,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7311769247"
    },
    {
      "job": 78680662200,
      "time": 201,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7311680730"
    },
    {
      "job": 78680662205,
      "time": 126,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7311673743"
    },
    {
      "job": 78680662202,
      "time": 95,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7311670770"
    },
    {
      "job": 78680439777,
      "time": 247,
      "config": "source",
      "r": "4.6.0",
      "check": "ERROR",
      "artifact": "7311661127"
    },
    {
      "job": 78680662193,
      "time": 169,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7311677653"
    },
    {
      "job": 78680662214,
      "time": 198,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7311680542"
    },
    {
      "job": 78680662209,
      "time": 159,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7311676803"
    },
    {
      "job": 78680662207,
      "time": 216,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7311682389"
    }
  ],
  "_buildurl": "https://github.com/r-universe/evolecolgroup/actions/runs/26695961539",
  "_status": "failure",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/EvolEcolGroup/tidygenclust",
  "_commit": {
    "id": "36122fa6bac3b185f5234c659a823f002f0cbfc3",
    "author": "Eirlys Tysall <73304032+EirlysTysall@users.noreply.github.com>",
    "committer": "GitHub <noreply@github.com>",
    "message": "Update clumppling (#22)\n\n* style and lint\n\n* updated clumppling version and started updating commandline options.\nCo-authored-by: Evie Carter <eviecarter41@outlook.com>\nCo-authored-by: Andrea V. Pozzi <avp36@cam.ac.uk> Co-authored-by: Margherita Colucci <margherita.col@gmail.com>\n\n* Updated gt_clumppling arguments\n\nCo-authored-by: Evie Carter <eviecarter41@outlook.com>\nCo-authored-by: Andrea V. Pozzi <avp36@cam.ac.uk>\n\n* Updated Clumppling to latest version\n\nCo-authored-by: Margherita Colucci <margherita.col@gmail.com>\n\n* change python version from 3.12 to 3.11\n\nCo-authored-by: Margherita Colucci <margherita.col@gmail.com>\n\n* change python version 3.11 to 3.9\n\nCo-authored-by: Margherita Colucci <margherita.col@gmail.com>\n\n* set package version for cvxopt\n\nCo-authored-by: Margherita Colucci <margherita.col@gmail.com>\n\n* set version of setuptools in pip install command\n\n* set cvxopt version in pip command\n\n* Neaten parameters\n\n* Adjust clumppling installation so it is only set to older package versions for macOS14\n\n* allow multiple copies of the OpenMP runtime in CI\n\n* Add check for succesful clumppling installation in conda env\n\n* fix pip environment\n\n* ci loading\n\n* force conda env use\n\n* try dealy load\n\n* strengthen binding\n\n* avoid reassignment of binding\n\n* small edit\n\n* specify which pip to use\n\n* fix typo\n\n* install pip\n\n* Style and lint\n\n* bump version\n\n---------\n\nCo-authored-by: eviecarter33 <eviecarter41@outlook.com>\nCo-authored-by: Andrea V. Pozzi <avp36@cam.ac.uk>\nCo-authored-by: Margherita Colucci <margherita.col@gmail.com>\nCo-authored-by: Andrea Manica <am315@cam.ac.uk>",
    "time": 1780176492
  },
  "_maintainer": {
    "name": "Andrea Manica",
    "email": "am315@cam.ac.uk",
    "login": "dramanica",
    "bluesky": "@eegcam.bsky.social",
    "description": "For the software packages that we write and code accompanying papers, see @EvolEcolGroup ",
    "uuid": 3873428,
    "orcid": "0000-0003-1895-450X"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.5.0",
      "role": "Depends"
    },
    {
      "package": "dplyr",
      "role": "Imports"
    },
    {
      "package": "generics",
      "role": "Imports"
    },
    {
      "package": "ggplot2",
      "role": "Imports"
    },
    {
      "package": "patchwork",
      "role": "Imports"
    },
    {
      "package": "reticulate",
      "role": "Imports"
    },
    {
      "package": "rlang",
      "role": "Imports"
    },
    {
      "package": "tibble",
      "role": "Imports"
    },
    {
      "package": "tidypopgen",
      "role": "Imports"
    },
    {
      "package": "tidyr",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "readr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    }
  ],
  "_owner": "evolecolgroup",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-23",
      "n": 5
    },
    {
      "week": "2025-27",
      "n": 3
    },
    {
      "week": "2025-28",
      "n": 2
    },
    {
      "week": "2025-32",
      "n": 2
    },
    {
      "week": "2025-39",
      "n": 2
    },
    {
      "week": "2025-43",
      "n": 1
    },
    {
      "week": "2026-05",
      "n": 1
    },
    {
      "week": "2026-22",
      "n": 1
    }
  ],
  "_tags": [
    {
      "name": "v0.1.0",
      "date": "2025-09-26"
    }
  ],
  "_stars": 1,
  "_contributors": [
    {
      "user": "dramanica",
      "count": 123,
      "uuid": 3873428
    },
    {
      "user": "eirlystysall",
      "count": 7,
      "uuid": 73304032
    },
    {
      "user": "eviecarter33",
      "count": 5,
      "uuid": 104676495
    },
    {
      "user": "avpozzi",
      "count": 4,
      "uuid": 146725388
    },
    {
      "user": "ceciliapad",
      "count": 3,
      "uuid": 39531982
    },
    {
      "user": "m-colucci",
      "count": 1,
      "uuid": 61865099
    }
  ],
  "_userbio": {
    "uuid": 44270007,
    "type": "organization",
    "name": "Evolutionary Ecology Group at University of Cambridge"
  },
  "_downloads": {
    "count": 0,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/tidygenclust"
  },
  "_devurl": "https://github.com/evolecolgroup/tidygenclust",
  "_searchresults": 5,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "extra/tidygenclust.html",
    "manual.pdf"
  ],
  "_cranurl": false,
  "_releases": [],
  "_exports": [
    "%>%",
    "augment",
    "autoplot",
    "gt_clumppling",
    "gt_fastmixture",
    "scale_fill_distruct",
    "subset_gt_clumppling",
    "tgc_tools_install",
    "tgc_tools_version",
    "theme_distruct",
    "tidy"
  ],
  "_datasets": [
    {
      "name": "capeverde_pops",
      "title": "Population membership for the Capeverde dataset",
      "object": "capeverde_pops",
      "class": [
        "character"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "autoplot_gt_clumppling",
      "title": "autoplot for clumppling objects",
      "topics": [
        "autoplot.gt_clumppling"
      ]
    },
    {
      "page": "capeverde_pops",
      "title": "Population membership for the Capeverde dataset",
      "topics": [
        "capeverde_pops"
      ]
    },
    {
      "page": "gt_clumppling",
      "title": "run clumppling",
      "topics": [
        "gt_clumppling"
      ]
    },
    {
      "page": "gt_fastmixture",
      "title": "fastmixture algorithm for population genetics clustering",
      "topics": [
        "gt_fastmixture"
      ]
    },
    {
      "page": "subset_gt_clumppling",
      "title": "Subset a 'gt_clumppling' object",
      "topics": [
        "subset_gt_clumppling"
      ]
    },
    {
      "page": "tgc_tools_install",
      "title": "Install tools for 'tidygenclust'",
      "topics": [
        "tgc_tools_install"
      ]
    },
    {
      "page": "tgc_tools_version",
      "title": "Print version of the python tools installed by 'tidygenclust'",
      "topics": [
        "tgc_tools_version"
      ]
    },
    {
      "page": "tidy_gt_clumppling",
      "title": "Tidy a 'gt_clumppling' object",
      "topics": [
        "tidy.gt_clumppling"
      ]
    }
  ],
  "_pkglogo": "https://github.com/EvolEcolGroup/tidygenclust/raw/main/man/figures/logo.png",
  "_readme": "https://github.com/EvolEcolGroup/tidygenclust/raw/main/README.md",
  "_rundeps": [
    "BH",
    "bigassertr",
    "bigparallelr",
    "bigreadr",
    "bigsnpr",
    "bigsparser",
    "bigstatsr",
    "bigutilsr",
    "bit",
    "class",
    "classInt",
    "cli",
    "codetools",
    "cowplot",
    "cpp11",
    "data.table",
    "DBI",
    "DEoptimR",
    "digest",
    "doParallel",
    "doRNG",
    "dplyr",
    "e1071",
    "farver",
    "ff",
    "flock",
    "foreach",
    "generics",
    "ggplot2",
    "glue",
    "gtable",
    "here",
    "isoband",
    "iterators",
    "jsonlite",
    "KernSmooth",
    "labeling",
    "lattice",
    "lifecycle",
    "magrittr",
    "MASS",
    "Matrix",
    "nabor",
    "parallelly",
    "patchwork",
    "pillar",
    "pkgconfig",
    "png",
    "proxy",
    "ps",
    "purrr",
    "R6",
    "rappdirs",
    "RColorBrewer",
    "Rcpp",
    "RcppArmadillo",
    "RcppEigen",
    "RcppTOML",
    "reticulate",
    "RhpcBLASctl",
    "rlang",
    "rmio",
    "rngtools",
    "robustbase",
    "roptim",
    "rprojroot",
    "RSpectra",
    "runner",
    "runonce",
    "s2",
    "S7",
    "scales",
    "sf",
    "stringi",
    "stringr",
    "tibble",
    "tidypopgen",
    "tidyr",
    "tidyselect",
    "triebeard",
    "units",
    "urltools",
    "utf8",
    "vctrs",
    "viridisLite",
    "withr",
    "wk"
  ],
  "_score": 3.3010299956639813,
  "_indexed": true,
  "_nocasepkg": "tidygenclust",
  "_universes": [
    "evolecolgroup",
    "dramanica"
  ],
  "_previous": "0.1.0",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.1.1",
      "date": "2026-05-30T22:16:48.000Z",
      "distro": "noble",
      "commit": "36122fa6bac3b185f5234c659a823f002f0cbfc3",
      "fileid": "5e355c33ae23e5ffba41f61a7708e35025accfede4ed2c9e7492a109da60b8a6",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/evolecolgroup/actions/runs/26695961539"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "0.1.1",
      "date": "2026-05-30T22:03:37.000Z",
      "distro": "noble",
      "commit": "36122fa6bac3b185f5234c659a823f002f0cbfc3",
      "fileid": "5ce6c10ff498fee9e1c635ce41a7e12426d22fce48f503fce017e2dcc695720f",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/evolecolgroup/actions/runs/26695961539"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.1.1",
      "date": "2026-05-30T22:02:53.000Z",
      "commit": "36122fa6bac3b185f5234c659a823f002f0cbfc3",
      "fileid": "aa3526a87d35c08b35a981b66aff5fa52458216137b30e6f0835fae75c2ab0bc",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/evolecolgroup/actions/runs/26695961539"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "0.1.1",
      "date": "2026-05-30T22:02:26.000Z",
      "commit": "36122fa6bac3b185f5234c659a823f002f0cbfc3",
      "fileid": "705af99e1187d5207de5d96f12e6aef9ce5d8f5440a640dd20e0f9222cccdf1d",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/evolecolgroup/actions/runs/26695961539"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.1.1",
      "date": "2026-05-30T22:04:02.000Z",
      "commit": "36122fa6bac3b185f5234c659a823f002f0cbfc3",
      "fileid": "2eecaa918f19fb74fa177b8d4a60cf94f24f410571865ee7aeb2eb76a89594e2",
      "status": "success",
      "buildurl": "https://github.com/r-universe/evolecolgroup/actions/runs/26695961539"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.1.1",
      "date": "2026-05-30T22:02:50.000Z",
      "commit": "36122fa6bac3b185f5234c659a823f002f0cbfc3",
      "fileid": "b6abed750826f7d1761a65ca3b0803e835a7df9bedd97e6225a12b5f0af9052d",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/evolecolgroup/actions/runs/26695961539"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.1.1",
      "date": "2026-05-30T22:02:55.000Z",
      "commit": "36122fa6bac3b185f5234c659a823f002f0cbfc3",
      "fileid": "6f0f245b42f89a321e0184306a93ed112dbda4e7708574f4d779d552815d713f",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/evolecolgroup/actions/runs/26695961539"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "0.1.1",
      "date": "2026-05-30T22:03:46.000Z",
      "commit": "36122fa6bac3b185f5234c659a823f002f0cbfc3",
      "fileid": "5247fa9e45be374282da368dec8a592755a941b22500349196db9ad5acd03b3a",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/evolecolgroup/actions/runs/26695961539"
    }
  ]
}