{
  "_id": "6a1ed42cb401979e7340e11b",
  "Encoding": "UTF-8",
  "Package": "bigsnpr",
  "Type": "Package",
  "Title": "Analysis of Massive SNP Arrays",
  "Version": "1.12.21",
  "Date": "2025-08-21",
  "Authors@R": "c(\nperson(\"Florian\", \"Privé\", email = \"florian.prive.21@gmail.com\", role = c(\"aut\", \"cre\")),\nperson(\"Michael\", \"Blum\", role = \"ths\"),\nperson(\"Hugues\", \"Aschard\", email = \"hugues.aschard@pasteur.fr\", role = \"ths\"),\nperson(\"Bjarni Jóhann\", \"Vilhjálmsson\", email = \"bjv@econ.au.dk\", role = \"ths\"))",
  "Description": "Easy-to-use, efficient, flexible and scalable tools for\nanalyzing massive SNP arrays. Privé et al. (2018)\n<doi:10.1093/bioinformatics/bty185>.",
  "License": "GPL-3",
  "LazyData": "TRUE",
  "Language": "en-US",
  "ByteCompile": "TRUE",
  "SystemRequirements": "A few functions from package 'bigsnpr' wrap\nexisting software such as 'PLINK'\n<www.cog-genomics.org/plink2>. Functions are provided to\ndownload these software. Note that these external software\nmight not work for some operating systems (e.g. 'PLINK' might\nnot work on Solaris).",
  "RoxygenNote": "7.3.2",
  "Roxygen": "list(markdown = TRUE)",
  "URL": "https://privefl.github.io/bigsnpr/",
  "BugReports": "https://github.com/privefl/bigsnpr/issues",
  "Repository": "https://privefl.r-universe.dev",
  "Date/Publication": "2025-08-21 06:38:54 UTC",
  "RemoteUrl": "https://github.com/privefl/bigsnpr",
  "RemoteRef": "HEAD",
  "RemoteSha": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-05-20 22:36:20 UTC",
    "User": "root"
  },
  "Author": "Florian Privé [aut, cre],\nMichael Blum [ths],\nHugues Aschard [ths],\nBjarni Jóhann Vilhjálmsson [ths]",
  "Maintainer": "Florian Privé <florian.prive.21@gmail.com>",
  "MD5sum": "9c08fb0a72840b511692a4daf6244f78",
  "_user": "privefl",
  "_type": "src",
  "_file": "bigsnpr_1.12.21.tar.gz",
  "_fileid": "b275d93329445db3fc16402946ca9028aa80c48dd446e3ca2eba83685bfa01af",
  "_filesize": 1443988,
  "_sha256": "b275d93329445db3fc16402946ca9028aa80c48dd446e3ca2eba83685bfa01af",
  "_created": "2026-05-20T22:36:20.000Z",
  "_published": "2026-06-02T13:01:32.039Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 79075972358,
      "time": 405,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7123282396"
    },
    {
      "job": 79075972121,
      "time": 415,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7123284958"
    },
    {
      "job": 79075973125,
      "time": 409,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7123283427"
    },
    {
      "job": 79075973232,
      "time": 558,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7123322115"
    },
    {
      "job": 79075973384,
      "time": 265,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7123244515"
    },
    {
      "job": 79075973020,
      "time": 608,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7123334771"
    },
    {
      "job": 79075973208,
      "time": 297,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7123253037"
    },
    {
      "job": 79075972065,
      "time": 783,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7123379939"
    },
    {
      "job": 79075971349,
      "time": 356,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7123173105"
    },
    {
      "job": 79075971208,
      "time": 204,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7358358202"
    },
    {
      "job": 79075972288,
      "time": 464,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7123298056"
    },
    {
      "job": 79075972345,
      "time": 463,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7123297620"
    },
    {
      "job": 79075971976,
      "time": 473,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7123300633"
    }
  ],
  "_buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/privefl/bigsnpr",
  "_commit": {
    "id": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
    "author": "Florian Privé <florian.prive.21@gmail.com>",
    "committer": "Florian Privé <florian.prive.21@gmail.com>",
    "message": "update Date for CRAN\n",
    "time": 1755758334
  },
  "_maintainer": {
    "name": "Florian Privé",
    "email": "florian.prive.21@gmail.com",
    "login": "privefl",
    "bluesky": "@privefl.bsky.social",
    "description": "Data Scientist at Aíma (2025–)\n\n• Researcher in Statistical Human Genetics (2016–2025)\n \n• ENSIMAG (2013–2016)",
    "uuid": 11161036
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.4",
      "role": "Depends"
    },
    {
      "package": "bigstatsr",
      "version": ">= 1.6.2",
      "role": "Depends"
    },
    {
      "package": "bigsparser",
      "role": "LinkingTo"
    },
    {
      "package": "bigstatsr",
      "role": "LinkingTo"
    },
    {
      "package": "Rcpp",
      "role": "LinkingTo"
    },
    {
      "package": "RcppArmadillo",
      "version": ">= 0.9.600",
      "role": "LinkingTo"
    },
    {
      "package": "rmio",
      "role": "LinkingTo"
    },
    {
      "package": "roptim",
      "version": ">= 0.1.6",
      "role": "LinkingTo"
    },
    {
      "package": "bigassertr",
      "version": ">= 0.1.7",
      "role": "Imports"
    },
    {
      "package": "bigparallelr",
      "role": "Imports"
    },
    {
      "package": "bigsparser",
      "version": ">= 0.6",
      "role": "Imports"
    },
    {
      "package": "bigreadr",
      "role": "Imports"
    },
    {
      "package": "bigutilsr",
      "version": ">= 0.3.3",
      "role": "Imports"
    },
    {
      "package": "data.table",
      "version": ">= 1.12.4",
      "role": "Imports"
    },
    {
      "package": "doRNG",
      "role": "Imports"
    },
    {
      "package": "foreach",
      "role": "Imports"
    },
    {
      "package": "ggplot2",
      "role": "Imports"
    },
    {
      "package": "magrittr",
      "role": "Imports"
    },
    {
      "package": "Matrix",
      "version": ">= 1.3.0",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "Rcpp",
      "role": "Imports"
    },
    {
      "package": "runonce",
      "version": ">= 0.2.3",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "vctrs",
      "role": "Imports"
    },
    {
      "package": "bindata",
      "role": "Suggests"
    },
    {
      "package": "covr",
      "role": "Suggests"
    },
    {
      "package": "dbplyr",
      "version": ">= 1.4",
      "role": "Suggests"
    },
    {
      "package": "dplyr",
      "role": "Suggests"
    },
    {
      "package": "gaston",
      "role": "Suggests"
    },
    {
      "package": "glue",
      "role": "Suggests"
    },
    {
      "package": "Hmisc",
      "role": "Suggests"
    },
    {
      "package": "microbenchmark",
      "role": "Suggests"
    },
    {
      "package": "pcadapt",
      "version": ">= 4.1",
      "role": "Suggests"
    },
    {
      "package": "quadprog",
      "role": "Suggests"
    },
    {
      "package": "RhpcBLASctl",
      "role": "Suggests"
    },
    {
      "package": "rmutil",
      "role": "Suggests"
    },
    {
      "package": "RSpectra",
      "role": "Suggests"
    },
    {
      "package": "RSQLite",
      "role": "Suggests"
    },
    {
      "package": "R.utils",
      "role": "Suggests"
    },
    {
      "package": "spelling",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "tibble",
      "role": "Suggests"
    },
    {
      "package": "xgboost",
      "role": "Suggests"
    }
  ],
  "_owner": "privefl",
  "_selfowned": true,
  "_usedby": 10,
  "_updates": [
    {
      "week": "2025-25",
      "n": 2
    },
    {
      "week": "2025-27",
      "n": 5
    },
    {
      "week": "2025-32",
      "n": 1
    },
    {
      "week": "2025-33",
      "n": 1
    },
    {
      "week": "2025-34",
      "n": 1
    }
  ],
  "_tags": [],
  "_topics": [
    "big-data",
    "bioinformatics",
    "memory-mapped-file",
    "parallel-computing",
    "polygenic-scores",
    "population-structure-inference",
    "snp-data",
    "statistical-methods",
    "openblas",
    "zlib",
    "cpp",
    "openmp"
  ],
  "_stars": 220,
  "_contributors": [
    {
      "user": "privefl",
      "count": 1085,
      "uuid": 11161036
    },
    {
      "user": "hugolyu",
      "count": 2,
      "uuid": 78303705
    },
    {
      "user": "alice-macqueen",
      "count": 2,
      "uuid": 34892189
    },
    {
      "user": "dramanica",
      "count": 1,
      "uuid": 3873428
    },
    {
      "user": "abichat",
      "count": 1,
      "uuid": 30300749
    },
    {
      "user": "jimhester",
      "count": 1,
      "uuid": 205275
    },
    {
      "user": "monsanto-pinheiro",
      "count": 1,
      "uuid": 8035311
    },
    {
      "user": "timo-cpr",
      "count": 1,
      "uuid": 65537027
    }
  ],
  "_userbio": {
    "uuid": 11161036,
    "type": "user",
    "name": "Florian Privé",
    "description": "Data Scientist at Aíma (2025–)\r\n\r\n• Researcher in Statistical Human Genetics (2016–2025)\r\n \r\n• ENSIMAG (2013–2016)"
  },
  "_downloads": {
    "count": 2023,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/bigsnpr"
  },
  "_mentions": 12,
  "_devurl": "https://github.com/privefl/bigsnpr",
  "_pkgdown": "https://privefl.github.io/bigsnpr/",
  "_searchresults": 1686,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/bigsnpr.html",
    "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",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/privefl/bigsnpr",
  "_realowner": "privefl",
  "_cranurl": true,
  "_releases": [
    {
      "version": "0.2.2",
      "date": "2017-12-05"
    },
    {
      "version": "0.2.4",
      "date": "2018-02-01"
    },
    {
      "version": "1.2.1",
      "date": "2020-02-03"
    },
    {
      "version": "1.2.2",
      "date": "2020-02-07"
    },
    {
      "version": "1.3.0",
      "date": "2020-03-09"
    },
    {
      "version": "1.4.4",
      "date": "2020-07-05"
    },
    {
      "version": "1.5.2",
      "date": "2020-11-01"
    },
    {
      "version": "1.6.1",
      "date": "2021-01-11"
    },
    {
      "version": "1.8.1",
      "date": "2021-06-03"
    },
    {
      "version": "1.9.10",
      "date": "2022-02-13"
    },
    {
      "version": "1.9.11",
      "date": "2022-02-16"
    },
    {
      "version": "1.10.8",
      "date": "2022-07-09"
    },
    {
      "version": "1.11.4",
      "date": "2022-10-21"
    },
    {
      "version": "1.11.6",
      "date": "2022-11-07"
    },
    {
      "version": "1.12.2",
      "date": "2023-03-28"
    },
    {
      "version": "1.12.15",
      "date": "2024-09-20"
    },
    {
      "version": "1.12.18",
      "date": "2024-11-26"
    },
    {
      "version": "1.12.21",
      "date": "2025-08-21"
    }
  ],
  "_exports": [
    "as_SFBM",
    "bed",
    "bed_autoSVD",
    "bed_clumping",
    "bed_cor",
    "bed_counts",
    "bed_cprodVec",
    "bed_ld_scores",
    "bed_MAF",
    "bed_pcadapt",
    "bed_prodVec",
    "bed_projectPCA",
    "bed_projectSelfPCA",
    "bed_randomSVD",
    "bed_scaleBinom",
    "bed_tcrossprodSelf",
    "CODE_012",
    "CODE_DOSAGE",
    "CODE_IMPUTE_PRED",
    "coef_to_liab",
    "download_1000G",
    "download_beagle",
    "download_genetic_map",
    "download_plink",
    "download_plink2",
    "same_ref",
    "seq_log",
    "snp_ancestry_summary",
    "snp_asGeneticPos",
    "snp_asGeneticPos2",
    "snp_attach",
    "snp_attachExtdata",
    "snp_autoSVD",
    "snp_beagleImpute",
    "snp_clumping",
    "snp_cor",
    "snp_fake",
    "snp_fastImpute",
    "snp_fastImputeSimple",
    "snp_fst",
    "snp_gc",
    "snp_getSampleInfos",
    "snp_grid_clumping",
    "snp_grid_PRS",
    "snp_grid_stacking",
    "snp_indLRLDR",
    "snp_lassosum2",
    "snp_ld_scores",
    "snp_ldpred2_auto",
    "snp_ldpred2_grid",
    "snp_ldpred2_inf",
    "snp_ldsc",
    "snp_ldsc2",
    "snp_ldsplit",
    "snp_MAF",
    "snp_manhattan",
    "snp_match",
    "snp_MAX3",
    "snp_modifyBuild",
    "snp_pcadapt",
    "snp_plinkIBDQC",
    "snp_plinkKINGQC",
    "snp_plinkQC",
    "snp_plinkRmSamples",
    "snp_prodBGEN",
    "snp_projectSelfPCA",
    "snp_PRS",
    "snp_pruning",
    "snp_qq",
    "snp_readBed",
    "snp_readBed2",
    "snp_readBGEN",
    "snp_readBGI",
    "snp_save",
    "snp_scaleAlpha",
    "snp_scaleBinom",
    "snp_simuPheno",
    "snp_split",
    "snp_subset",
    "snp_thr_correct",
    "snp_writeBed",
    "sub_bed"
  ],
  "_datasets": [
    {
      "name": "LD.wiki34",
      "title": "Long-range LD regions",
      "object": "LD.wiki34",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Chr",
        "Start",
        "Stop",
        "ID"
      ],
      "rows": 34,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "snp_clumping",
      "title": "LD clumping",
      "topics": [
        "bed_clumping",
        "snp_clumping",
        "snp_indLRLDR",
        "snp_pruning"
      ]
    },
    {
      "page": "bed_counts",
      "title": "Counts",
      "topics": [
        "bed_counts"
      ]
    },
    {
      "page": "bed_cprodVec",
      "title": "Cross-product with a vector",
      "topics": [
        "bed_cprodVec"
      ]
    },
    {
      "page": "bed_MAF",
      "title": "Allele frequencies",
      "topics": [
        "bed_MAF"
      ]
    },
    {
      "page": "bed_prodVec",
      "title": "Product with a vector",
      "topics": [
        "bed_prodVec"
      ]
    },
    {
      "page": "bed_projectPCA",
      "title": "Projecting PCA",
      "topics": [
        "bed_projectPCA"
      ]
    },
    {
      "page": "bed_projectSelfPCA",
      "title": "Projecting PCA",
      "topics": [
        "bed_projectSelfPCA",
        "snp_projectSelfPCA"
      ]
    },
    {
      "page": "bed_randomSVD",
      "title": "Randomized partial SVD",
      "topics": [
        "bed_randomSVD"
      ]
    },
    {
      "page": "bed_scaleBinom",
      "title": "Binomial(2, p) scaling",
      "topics": [
        "bed_scaleBinom"
      ]
    },
    {
      "page": "bed_tcrossprodSelf",
      "title": "tcrossprod / GRM",
      "topics": [
        "bed_tcrossprodSelf"
      ]
    },
    {
      "page": "bed-class",
      "title": "Class bed",
      "topics": [
        "bed",
        "bed-class",
        "bed_RC"
      ]
    },
    {
      "page": "bigSNP-class",
      "title": "Class bigSNP",
      "topics": [
        "bigSNP",
        "bigSNP-class"
      ]
    },
    {
      "page": "coef_to_liab",
      "title": "Liability scale",
      "topics": [
        "coef_to_liab"
      ]
    },
    {
      "page": "download_1000G",
      "title": "Download 1000G",
      "topics": [
        "download_1000G"
      ]
    },
    {
      "page": "download_beagle",
      "title": "Download Beagle 4.1",
      "topics": [
        "download_beagle"
      ]
    },
    {
      "page": "snp_asGeneticPos2",
      "title": "Download a genetic map",
      "topics": [
        "download_genetic_map",
        "snp_asGeneticPos2"
      ]
    },
    {
      "page": "download_plink",
      "title": "Download PLINK",
      "topics": [
        "download_plink",
        "download_plink2"
      ]
    },
    {
      "page": "LD.wiki34",
      "title": "Long-range LD regions",
      "topics": [
        "LD.wiki34"
      ]
    },
    {
      "page": "same_ref",
      "title": "Determine reference divergence",
      "topics": [
        "same_ref"
      ]
    },
    {
      "page": "SCT",
      "title": "Stacked C+T (SCT)",
      "topics": [
        "SCT",
        "snp_grid_clumping",
        "snp_grid_PRS",
        "snp_grid_stacking"
      ]
    },
    {
      "page": "seq_log",
      "title": "Sequence, evenly spaced on a logarithmic scale",
      "topics": [
        "seq_log"
      ]
    },
    {
      "page": "snp_ancestry_summary",
      "title": "Estimation of ancestry proportions",
      "topics": [
        "snp_ancestry_summary"
      ]
    },
    {
      "page": "snp_asGeneticPos",
      "title": "Interpolate to genetic positions",
      "topics": [
        "snp_asGeneticPos"
      ]
    },
    {
      "page": "snp_attach",
      "title": "Attach a \"bigSNP\" from backing files",
      "topics": [
        "snp_attach"
      ]
    },
    {
      "page": "snp_attachExtdata",
      "title": "Attach a \"bigSNP\" for examples and tests",
      "topics": [
        "snp_attachExtdata"
      ]
    },
    {
      "page": "snp_autoSVD",
      "title": "Truncated SVD while limiting LD",
      "topics": [
        "bed_autoSVD",
        "snp_autoSVD"
      ]
    },
    {
      "page": "snp_beagleImpute",
      "title": "Imputation",
      "topics": [
        "snp_beagleImpute"
      ]
    },
    {
      "page": "snp_cor",
      "title": "Correlation matrix",
      "topics": [
        "bed_cor",
        "snp_cor"
      ]
    },
    {
      "page": "snp_fastImpute",
      "title": "Fast imputation",
      "topics": [
        "snp_fastImpute"
      ]
    },
    {
      "page": "snp_fastImputeSimple",
      "title": "Fast imputation",
      "topics": [
        "snp_fastImputeSimple"
      ]
    },
    {
      "page": "snp_fst",
      "title": "Fixation index (Fst)",
      "topics": [
        "snp_fst"
      ]
    },
    {
      "page": "snp_gc",
      "title": "Genomic Control",
      "topics": [
        "snp_gc"
      ]
    },
    {
      "page": "snp_getSampleInfos",
      "title": "Get sample information",
      "topics": [
        "snp_getSampleInfos"
      ]
    },
    {
      "page": "snp_lassosum2",
      "title": "lassosum2",
      "topics": [
        "snp_lassosum2"
      ]
    },
    {
      "page": "snp_ld_scores",
      "title": "LD scores",
      "topics": [
        "bed_ld_scores",
        "snp_ld_scores"
      ]
    },
    {
      "page": "LDpred2",
      "title": "LDpred2",
      "topics": [
        "snp_ldpred2_auto",
        "snp_ldpred2_grid",
        "snp_ldpred2_inf"
      ]
    },
    {
      "page": "snp_ldsc",
      "title": "LD score regression",
      "topics": [
        "snp_ldsc",
        "snp_ldsc2"
      ]
    },
    {
      "page": "snp_ldsplit",
      "title": "Independent LD blocks",
      "topics": [
        "snp_ldsplit"
      ]
    },
    {
      "page": "snp_MAF",
      "title": "MAF",
      "topics": [
        "snp_MAF"
      ]
    },
    {
      "page": "snp_manhattan",
      "title": "Manhattan plot",
      "topics": [
        "snp_manhattan"
      ]
    },
    {
      "page": "snp_match",
      "title": "Match alleles",
      "topics": [
        "snp_match"
      ]
    },
    {
      "page": "snp_MAX3",
      "title": "MAX3 statistic",
      "topics": [
        "snp_MAX3"
      ]
    },
    {
      "page": "snp_modifyBuild",
      "title": "Modify genome build",
      "topics": [
        "snp_modifyBuild"
      ]
    },
    {
      "page": "snp_pcadapt",
      "title": "Outlier detection",
      "topics": [
        "bed_pcadapt",
        "snp_pcadapt"
      ]
    },
    {
      "page": "snp_plinkIBDQC",
      "title": "Identity-by-descent",
      "topics": [
        "snp_plinkIBDQC"
      ]
    },
    {
      "page": "snp_plinkKINGQC",
      "title": "Relationship-based pruning",
      "topics": [
        "snp_plinkKINGQC"
      ]
    },
    {
      "page": "snp_plinkQC",
      "title": "Quality Control",
      "topics": [
        "snp_plinkQC"
      ]
    },
    {
      "page": "snp_plinkRmSamples",
      "title": "Remove samples",
      "topics": [
        "snp_plinkRmSamples"
      ]
    },
    {
      "page": "snp_prodBGEN",
      "title": "BGEN matrix product",
      "topics": [
        "snp_prodBGEN"
      ]
    },
    {
      "page": "snp_PRS",
      "title": "PRS",
      "topics": [
        "snp_PRS"
      ]
    },
    {
      "page": "snp_qq",
      "title": "Q-Q plot",
      "topics": [
        "snp_qq"
      ]
    },
    {
      "page": "snp_readBed",
      "title": "Read PLINK files into a \"bigSNP\"",
      "topics": [
        "snp_readBed",
        "snp_readBed2"
      ]
    },
    {
      "page": "snp_readBGEN",
      "title": "Read BGEN files into a \"bigSNP\"",
      "topics": [
        "snp_readBGEN"
      ]
    },
    {
      "page": "snp_readBGI",
      "title": "Read variant info from one BGI file",
      "topics": [
        "snp_readBGI"
      ]
    },
    {
      "page": "snp_save",
      "title": "Save modifications",
      "topics": [
        "snp_save"
      ]
    },
    {
      "page": "snp_scaleBinom",
      "title": "Binomial(n, p) scaling",
      "topics": [
        "snp_scaleAlpha",
        "snp_scaleBinom"
      ]
    },
    {
      "page": "snp_simuPheno",
      "title": "Simulate phenotypes",
      "topics": [
        "snp_simuPheno"
      ]
    },
    {
      "page": "snp_split",
      "title": "Split-parApply-Combine",
      "topics": [
        "snp_split"
      ]
    },
    {
      "page": "snp_subset",
      "title": "Subset a bigSNP",
      "topics": [
        "snp_subset",
        "subset.bigSNP"
      ]
    },
    {
      "page": "snp_thr_correct",
      "title": "Thresholding and correction",
      "topics": [
        "snp_thr_correct"
      ]
    },
    {
      "page": "snp_writeBed",
      "title": "Write PLINK files from a \"bigSNP\"",
      "topics": [
        "snp_writeBed"
      ]
    },
    {
      "page": "sub_bed",
      "title": "Replace extension '.bed'",
      "topics": [
        "sub_bed"
      ]
    }
  ],
  "_readme": "https://github.com/privefl/bigsnpr/raw/HEAD/README.md",
  "_rundeps": [
    "BH",
    "bigassertr",
    "bigparallelr",
    "bigreadr",
    "bigsparser",
    "bigstatsr",
    "bigutilsr",
    "bit",
    "cli",
    "codetools",
    "cowplot",
    "cpp11",
    "data.table",
    "DEoptimR",
    "digest",
    "doParallel",
    "doRNG",
    "farver",
    "ff",
    "flock",
    "foreach",
    "ggplot2",
    "glue",
    "gtable",
    "isoband",
    "iterators",
    "labeling",
    "lattice",
    "lifecycle",
    "magrittr",
    "Matrix",
    "nabor",
    "parallelly",
    "pillar",
    "pkgconfig",
    "ps",
    "R6",
    "RColorBrewer",
    "Rcpp",
    "RcppArmadillo",
    "RcppEigen",
    "RhpcBLASctl",
    "rlang",
    "rmio",
    "rngtools",
    "robustbase",
    "roptim",
    "RSpectra",
    "runonce",
    "S7",
    "scales",
    "tibble",
    "triebeard",
    "urltools",
    "utf8",
    "vctrs",
    "viridisLite",
    "withr"
  ],
  "_sysdeps": [
    {
      "shlib": "libblas",
      "package": "libopenblas0-pthread",
      "source": "openblas",
      "version": "0.3.26+ds-1ubuntu0.1",
      "name": "openblas",
      "homepage": "https://www.openblas.net/",
      "description": "Optimized BLAS (linear algebra) library (shared lib, pthread)"
    },
    {
      "shlib": "libz",
      "package": "zlib1g",
      "headers": "zlib1g-dev",
      "source": "zlib",
      "version": "1:1.3.dfsg-3.1ubuntu2.1",
      "name": "zlib",
      "homepage": "http://zlib.net/",
      "description": "compression library - runtime"
    },
    {
      "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"
    },
    {
      "shlib": "libgomp",
      "package": "libgomp1",
      "source": "gcc",
      "version": "14.2.0-4ubuntu2~24.04.1",
      "name": "openmp",
      "homepage": "http://gcc.gnu.org/",
      "description": "GCC OpenMP (GOMP) support library"
    }
  ],
  "_score": 11.59543543728769,
  "_indexed": true,
  "_nocasepkg": "bigsnpr",
  "_universes": [
    "privefl"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.12.21",
      "date": "2026-05-20T22:39:55.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
      "fileid": "8031738f2567f92a78b52195f159e669611b5e6f66af048c393a56cd9f73eb50",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.12.21",
      "date": "2026-05-20T22:39:58.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
      "fileid": "bdc66c39ed7c1447086c7cef9b6ab4aaeecc6e129777ab06b0383f5643d54a91",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.12.21",
      "date": "2026-05-20T22:40:12.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
      "fileid": "cff28e62f6cc5a396e09168532ed45dca022845660c2f80802ebf12a8bc70a12",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.12.21",
      "date": "2026-05-20T22:42:10.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
      "fileid": "cf4d6782de30b06cfd6790ffc83e801d9bdbe1252c1d2df0bd556f634b4a863d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.12.21",
      "date": "2026-05-20T22:39:02.000Z",
      "arch": "aarch64",
      "commit": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
      "fileid": "3732777eb8280c54f0bb6d40ed5c435a06fda1b051bd865f7fa3a7b52bb6c491",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.12.21",
      "date": "2026-05-20T22:40:06.000Z",
      "arch": "x86_64",
      "commit": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
      "fileid": "9c65f789449874a37dc91dc03159868b093bb17a5d180f1a756d8f3e360b1c0d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.12.21",
      "date": "2026-05-20T22:39:07.000Z",
      "arch": "aarch64",
      "commit": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
      "fileid": "fcbe2ec294049971b94ec1a785d9e820fa6c02e6df96eab3c39bd691f1c047ac",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.12.21",
      "date": "2026-05-20T22:41:05.000Z",
      "arch": "x86_64",
      "commit": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
      "fileid": "cecc2d237fc4ba2a451b71b51d3018509e70d4cea0d082b47594330c82603a09",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.12.21",
      "date": "2026-05-20T22:38:54.000Z",
      "arch": "x86_64",
      "commit": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
      "fileid": "3a62efd5ebf0a50d861f96d7ba9c1e064830ee5cf85d379ff557be373a2aee60",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.12.21",
      "date": "2026-05-20T22:39:16.000Z",
      "arch": "x86_64",
      "commit": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
      "fileid": "b2c93642c6d8329141f53549f77da14fb81762dcf3a7441b487fe0e3cdb30de6",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.12.21",
      "date": "2026-05-20T22:39:00.000Z",
      "arch": "x86_64",
      "commit": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
      "fileid": "cd51f1e93f4d1766639474fe9e2cd6d23901dcf95dd048702c8e8ce83b67b405",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.12.21",
      "date": "2026-06-02T12:59:36.000Z",
      "arch": "emscripten",
      "commit": "467ef18eb81becd5a2ee6b4f1b02c25e62f3310b",
      "fileid": "afabb53b1b8812addf908d8bc03537622156e601d2641ec265a517b2065b1f0b",
      "status": "success",
      "buildurl": "https://github.com/r-universe/privefl/actions/runs/26193769679"
    }
  ]
}