{
  "_id": "6a22859ecd65a98ecbd53085",
  "Type": "Package",
  "Package": "clustermole",
  "Title": "Unbiased Single-Cell Transcriptomic Data Cell Type\nIdentification",
  "Version": "1.1.1",
  "Authors@R": "person(\"Igor\", \"Dolgalev\", , \"igor.dolgalev@nyumc.org\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-4451-126X\"))",
  "Description": "Assignment of cell type labels to single-cell RNA\nsequencing (scRNA-seq) clusters is often a time-consuming\nprocess that involves manual inspection of the cluster marker\ngenes complemented with a detailed literature search. This is\nespecially challenging when unexpected or poorly described\npopulations are present. The clustermole R package provides\nmethods to query thousands of human and mouse cell identity\nmarkers sourced from a variety of databases.",
  "License": "MIT + file LICENSE",
  "URL": "https://igordot.github.io/clustermole/",
  "BugReports": "https://github.com/igordot/clustermole/issues",
  "VignetteBuilder": "knitr",
  "biocViews": "",
  "Encoding": "UTF-8",
  "RoxygenNote": "7.2.3",
  "Config/pak/sysreqs": "cmake make libmagick++-dev gsfonts libicu-dev\nlibpng-dev libuv1-dev libxml2-dev libssl-dev zlib1g-dev",
  "Repository": "https://igordot.r-universe.dev",
  "Date/Publication": "2024-01-09 01:35:34 UTC",
  "RemoteUrl": "https://github.com/igordot/clustermole",
  "RemoteRef": "v1.1.1",
  "RemoteSha": "f343fa5e2dfadcbbaa87350cead8e19ee98e23b0",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-05 08:05:35 UTC",
    "User": "root"
  },
  "Author": "Igor Dolgalev [aut, cre] (ORCID:\n<https://orcid.org/0000-0003-4451-126X>)",
  "Maintainer": "Igor Dolgalev <igor.dolgalev@nyumc.org>",
  "MD5sum": "d9ddacf27e044b8f88c9a7a2ad7dc9c9",
  "_user": "igordot",
  "_type": "src",
  "_file": "clustermole_1.1.1.tar.gz",
  "_fileid": "a301be984531f326cca1a042cc5be3280672baadd268c94d2ed6738c3f4ec3a7",
  "_filesize": 1374450,
  "_sha256": "a301be984531f326cca1a042cc5be3280672baadd268c94d2ed6738c3f4ec3a7",
  "_created": "2026-06-05T08:05:35.000Z",
  "_published": "2026-06-05T08:15:26.553Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 79688820067,
      "time": 440,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7431919889"
    },
    {
      "job": 79688820132,
      "time": 520,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7431943629"
    },
    {
      "job": 79688820076,
      "time": 469,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7431916748"
    },
    {
      "job": 79688820056,
      "time": 397,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7431899203"
    },
    {
      "job": 79687983922,
      "time": 345,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7431793453"
    },
    {
      "job": 79688820049,
      "time": 186,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7431848122"
    },
    {
      "job": 79688820039,
      "time": 371,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7431900744"
    },
    {
      "job": 79688820103,
      "time": 332,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7431889831"
    },
    {
      "job": 79688820061,
      "time": 327,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7431888386"
    }
  ],
  "_buildurl": "https://github.com/r-universe/igordot/actions/runs/27003055447",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/igordot/clustermole",
  "_commit": {
    "id": "f343fa5e2dfadcbbaa87350cead8e19ee98e23b0",
    "author": "igor <6363505+igordot@users.noreply.github.com>",
    "committer": "igor <6363505+igordot@users.noreply.github.com>",
    "message": "Prepare for CRAN release\n",
    "time": 1704764134
  },
  "_maintainer": {
    "name": "Igor Dolgalev",
    "email": "igor.dolgalev@nyumc.org",
    "login": "igordot",
    "description": "",
    "uuid": 6363505,
    "orcid": "0000-0003-4451-126X"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.3",
      "role": "Depends"
    },
    {
      "package": "dplyr",
      "role": "Imports"
    },
    {
      "package": "GSEABase",
      "role": "Imports"
    },
    {
      "package": "GSVA",
      "version": ">= 1.50.0",
      "role": "Imports"
    },
    {
      "package": "magrittr",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "rlang",
      "role": "Imports"
    },
    {
      "package": "singscore",
      "role": "Imports"
    },
    {
      "package": "tibble",
      "role": "Imports"
    },
    {
      "package": "tidyr",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "covr",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "roxygen2",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    }
  ],
  "_owner": "igordot",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [],
  "_tags": [],
  "_topics": [
    "cell-type",
    "cell-type-annotation",
    "cell-type-classification",
    "cell-type-identification",
    "cell-type-matching",
    "gene-expression-signatures",
    "scrna-seq",
    "single-cell"
  ],
  "_stars": 15,
  "_contributors": [
    {
      "user": "igordot",
      "count": 51,
      "uuid": 6363505
    }
  ],
  "_userbio": {
    "uuid": 6363505,
    "type": "user",
    "name": "igor"
  },
  "_downloads": {
    "count": 427,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/clustermole"
  },
  "_devurl": "https://github.com/igordot/clustermole",
  "_pkgdown": "https://igordot.github.io/clustermole/",
  "_searchresults": 39,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/clustermole.html",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/igordot/clustermole",
  "_realowner": "igordot",
  "_cranurl": true,
  "_releases": [
    {
      "version": "1.0.0",
      "date": "2020-01-20"
    },
    {
      "version": "1.0.1",
      "date": "2020-01-27"
    },
    {
      "version": "1.1.0",
      "date": "2021-01-26"
    },
    {
      "version": "1.1.1",
      "date": "2024-01-08"
    }
  ],
  "_exports": [
    "%>%",
    "clustermole_enrichment",
    "clustermole_markers",
    "clustermole_overlaps",
    "read_gmt"
  ],
  "_help": [
    {
      "page": "clustermole_enrichment",
      "title": "Cell types based on the expression of all genes",
      "topics": [
        "clustermole_enrichment"
      ]
    },
    {
      "page": "clustermole_markers",
      "title": "Available cell type markers",
      "topics": [
        "clustermole_markers"
      ]
    },
    {
      "page": "clustermole_overlaps",
      "title": "Cell types based on overlap of marker genes",
      "topics": [
        "clustermole_overlaps"
      ]
    },
    {
      "page": "read_gmt",
      "title": "Read a GMT file into a data frame",
      "topics": [
        "read_gmt"
      ]
    }
  ],
  "_readme": "https://github.com/igordot/clustermole/raw/v1.1.1/README.md",
  "_rundeps": [
    "abind",
    "annotate",
    "AnnotationDbi",
    "askpass",
    "assorthead",
    "base64enc",
    "beachmat",
    "BH",
    "Biobase",
    "BiocFileCache",
    "BiocGenerics",
    "biocmake",
    "BiocParallel",
    "BiocSingular",
    "Biostrings",
    "bit",
    "bit64",
    "blob",
    "bslib",
    "cachem",
    "cli",
    "codetools",
    "cpp11",
    "crayon",
    "crosstalk",
    "curl",
    "data.table",
    "DBI",
    "dbplyr",
    "DelayedArray",
    "DelayedMatrixStats",
    "digest",
    "dir.expiry",
    "dplyr",
    "edgeR",
    "evaluate",
    "farver",
    "fastmap",
    "filelock",
    "fontawesome",
    "formatR",
    "fs",
    "futile.logger",
    "futile.options",
    "generics",
    "GenomicRanges",
    "ggplot2",
    "ggrepel",
    "glue",
    "graph",
    "GSEABase",
    "GSVA",
    "gtable",
    "h5mread",
    "HDF5Array",
    "highr",
    "htmltools",
    "htmlwidgets",
    "httr",
    "httr2",
    "IRanges",
    "irlba",
    "isoband",
    "jquerylib",
    "jsonlite",
    "KEGGREST",
    "knitr",
    "labeling",
    "lambda.r",
    "later",
    "lattice",
    "lazyeval",
    "lifecycle",
    "limma",
    "locfit",
    "magick",
    "magrittr",
    "Matrix",
    "MatrixGenerics",
    "matrixStats",
    "memoise",
    "memuse",
    "mime",
    "openssl",
    "otel",
    "pillar",
    "pkgconfig",
    "plotly",
    "plyr",
    "png",
    "promises",
    "purrr",
    "R6",
    "rappdirs",
    "RColorBrewer",
    "Rcpp",
    "reshape",
    "reshape2",
    "rhdf5",
    "rhdf5filters",
    "Rhdf5lib",
    "rjson",
    "rlang",
    "rmarkdown",
    "RSQLite",
    "rsvd",
    "S4Arrays",
    "S4Vectors",
    "S7",
    "sass",
    "ScaledMatrix",
    "scales",
    "Seqinfo",
    "SingleCellExperiment",
    "singscore",
    "snow",
    "SparseArray",
    "sparseMatrixStats",
    "SpatialExperiment",
    "statmod",
    "stringi",
    "stringr",
    "SummarizedExperiment",
    "sys",
    "tibble",
    "tidyr",
    "tidyselect",
    "tinytex",
    "utf8",
    "vctrs",
    "viridisLite",
    "withr",
    "xfun",
    "XML",
    "xtable",
    "XVector",
    "yaml"
  ],
  "_vignettes": [
    {
      "source": "clustermole-intro.Rmd",
      "filename": "clustermole-intro.html",
      "title": "Introduction to clustermole",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Overview",
        "Setup",
        "Cell type markers",
        "Cell types based on marker genes",
        "Cell types based on an expression matrix"
      ],
      "created": "2020-01-03 21:45:51",
      "modified": "2024-01-08 15:19:36",
      "commits": 8
    }
  ],
  "_score": 5.4661258704182,
  "_indexed": true,
  "_nocasepkg": "clustermole",
  "_universes": [
    "igordot"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.1.1",
      "date": "2026-06-05T08:09:17.000Z",
      "distro": "noble",
      "commit": "f343fa5e2dfadcbbaa87350cead8e19ee98e23b0",
      "fileid": "1cf3ae16d54fdbb1c0a132be50a01a5c6cb7a5a71a7cc49168aba80b8256a95f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/igordot/actions/runs/27003055447"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.1.1",
      "date": "2026-06-05T08:09:19.000Z",
      "distro": "noble",
      "commit": "f343fa5e2dfadcbbaa87350cead8e19ee98e23b0",
      "fileid": "e51a193570e1f6be9f0fcd7737c53349cb41c722850d0902352d1832f7fa6545",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/igordot/actions/runs/27003055447"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.1.1",
      "date": "2026-06-05T08:09:18.000Z",
      "commit": "f343fa5e2dfadcbbaa87350cead8e19ee98e23b0",
      "fileid": "a9526ee0c2a46e9c4a706d3ec3786fe8c5ecefd0d238a7aee1ecb8dd50bb3d77",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/igordot/actions/runs/27003055447"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.1.1",
      "date": "2026-06-05T08:08:44.000Z",
      "commit": "f343fa5e2dfadcbbaa87350cead8e19ee98e23b0",
      "fileid": "9b892ffe44341e0badc59b3c922bc0bb362878b72a06c7595fe788c22f914801",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/igordot/actions/runs/27003055447"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.1.1",
      "date": "2026-06-05T08:09:23.000Z",
      "commit": "f343fa5e2dfadcbbaa87350cead8e19ee98e23b0",
      "fileid": "e4f57728093cc7b328efdb90763c5dbb6102367e68a4b48bd8b8f1296a02b9ed",
      "status": "success",
      "buildurl": "https://github.com/r-universe/igordot/actions/runs/27003055447"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.1.1",
      "date": "2026-06-05T08:07:56.000Z",
      "commit": "f343fa5e2dfadcbbaa87350cead8e19ee98e23b0",
      "fileid": "2b6c875686e7e21c5643cc6d4e8f11a9aa56381a4a1a4baeb3d557d731c048f0",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/igordot/actions/runs/27003055447"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.1.1",
      "date": "2026-06-05T08:07:52.000Z",
      "commit": "f343fa5e2dfadcbbaa87350cead8e19ee98e23b0",
      "fileid": "921e0fe2e495b5c49a8d54c8b55dbd2cd177bd2e292534bc2f8ab910a85f2d01",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/igordot/actions/runs/27003055447"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.1.1",
      "date": "2026-06-05T08:07:48.000Z",
      "commit": "f343fa5e2dfadcbbaa87350cead8e19ee98e23b0",
      "fileid": "99835f497b540c7af493ea9f6767e1931b536cb2c38fb064a105712869751e4d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/igordot/actions/runs/27003055447"
    }
  ]
}