{
  "_id": "6a212a77cd65a98ecbd22a98",
  "Package": "CNVMotif",
  "Title": "Explore, Analyze and Visualize Catalogs and Patterns of Copy\nNumber Variation in Cancer Genomics",
  "Version": "0.1.0",
  "Date": "2020-07-16",
  "Authors@R": "person(given = \"Shixiang\",\nfamily = \"Wang\",\nrole = c(\"aut\", \"cre\"),\nemail = \"w_shixiang@163.com\",\ncomment = c(ORCID = \"0000-0001-9855-7357\"))",
  "Description": "Provides functionality for exploring, analyzing and\nvisualizing the copy number variation (CNV) motifs in cancer\ngenomics.",
  "License": "MIT + file LICENSE",
  "biocViews": "",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE, roclets = c(\"collate\", \"namespace\",\n\"rd\", \"roxytest::testthat_roclet\"))",
  "RoxygenNote": "7.1.1",
  "Config/pak/sysreqs": "cmake make libicu-dev libuv1-dev zlib1g-dev",
  "Repository": "https://shixiangwang.r-universe.dev",
  "Date/Publication": "2022-05-20 15:23:15 UTC",
  "RemoteUrl": "https://github.com/ShixiangWang/CNVMotif",
  "RemoteRef": "HEAD",
  "RemoteSha": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-06-04 07:23:59 UTC",
    "User": "root"
  },
  "Author": "Shixiang Wang [aut, cre] (ORCID:\n<https://orcid.org/0000-0001-9855-7357>)",
  "Maintainer": "Shixiang Wang <w_shixiang@163.com>",
  "MD5sum": "1bcded47b4b20c47f1ec2a2333bc4646",
  "_user": "shixiangwang",
  "_type": "src",
  "_file": "CNVMotif_0.1.0.tar.gz",
  "_fileid": "e9a4f55687711068a0cef9df86ff03a5855efe82773151c039c3552ee6011922",
  "_filesize": 244827,
  "_sha256": "e9a4f55687711068a0cef9df86ff03a5855efe82773151c039c3552ee6011922",
  "_created": "2026-06-04T07:23:59.000Z",
  "_published": "2026-06-04T07:34:15.526Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 79469929343,
      "time": 221,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7405487090"
    },
    {
      "job": 79469929331,
      "time": 240,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7405491632"
    },
    {
      "job": 79469929384,
      "time": 238,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7405491889"
    },
    {
      "job": 79469929539,
      "time": 238,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7405491150"
    },
    {
      "job": 79469929267,
      "time": 171,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7405481697"
    },
    {
      "job": 79469929283,
      "time": 395,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7405568326"
    },
    {
      "job": 79469929237,
      "time": 134,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7405504977"
    },
    {
      "job": 79469929306,
      "time": 517,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7405585916"
    },
    {
      "job": 79469325573,
      "time": 255,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7405423134"
    },
    {
      "job": 79469929222,
      "time": 179,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7405474016"
    },
    {
      "job": 79469929446,
      "time": 232,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7405489186"
    },
    {
      "job": 79469929259,
      "time": 185,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7405476385"
    },
    {
      "job": 79469929290,
      "time": 176,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7405473019"
    }
  ],
  "_buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/ShixiangWang/CNVMotif",
  "_commit": {
    "id": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
    "author": "Shixiang Wang (王诗翔) <wangshx@shanghaitech.edu.cn>",
    "committer": "GitHub <noreply@github.com>",
    "message": "Update DESCRIPTION",
    "time": 1653060195
  },
  "_maintainer": {
    "name": "Shixiang Wang",
    "email": "w_shixiang@163.com",
    "login": "shixiangwang",
    "orcid": "0000-0001-9855-7357",
    "twitter": "@WangShxiang",
    "description": "形每万变，神唯守一。",
    "uuid": 25057508
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "Rcpp",
      "role": "LinkingTo"
    },
    {
      "package": "Biostrings",
      "role": "Imports"
    },
    {
      "package": "cluster",
      "role": "Imports"
    },
    {
      "package": "data.table",
      "role": "Imports"
    },
    {
      "package": "dplyr",
      "role": "Imports"
    },
    {
      "package": "factoextra",
      "role": "Imports"
    },
    {
      "package": "ggplot2",
      "role": "Imports"
    },
    {
      "package": "ggseqlogo",
      "role": "Imports"
    },
    {
      "package": "magrittr",
      "role": "Imports"
    },
    {
      "package": "msa",
      "role": "Imports"
    },
    {
      "package": "purrr",
      "role": "Imports"
    },
    {
      "package": "Rcpp",
      "role": "Imports"
    },
    {
      "package": "tidyr",
      "role": "Imports"
    },
    {
      "package": "covr",
      "role": "Suggests"
    },
    {
      "package": "doParallel",
      "role": "Suggests"
    },
    {
      "package": "foreach",
      "role": "Suggests"
    },
    {
      "package": "ggmsa",
      "role": "Suggests"
    },
    {
      "package": "ggpubr",
      "role": "Suggests"
    },
    {
      "package": "scales",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    }
  ],
  "_owner": "shixiangwang",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [],
  "_tags": [],
  "_topics": [
    "sigminer",
    "cpp"
  ],
  "_stars": 1,
  "_contributors": [
    {
      "user": "shixiangwang",
      "count": 47,
      "uuid": 25057508
    }
  ],
  "_userbio": {
    "uuid": 25057508,
    "type": "user",
    "name": "Shixiang Wang (王诗翔)",
    "description": "形每万变，神唯守一。"
  },
  "_downloads": {
    "count": 0,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/CNVMotif"
  },
  "_devurl": "https://github.com/shixiangwang/cnvmotif",
  "_searchresults": 3,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/CNVMotif.html",
    "extra/contents.json",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_cranurl": false,
  "_exports": [
    "%>%",
    "build_sub_matrix",
    "cluster_pam",
    "cluster_pam_estimate",
    "cluster_split",
    "do_msa",
    "extract_seqs",
    "geom_logo2",
    "get_score_matrix",
    "ggseqlogo2",
    "show_seq_logo",
    "show_seq_shape",
    "transform_seqs"
  ],
  "_help": [
    {
      "page": "build_sub_matrix",
      "title": "Build a Substitution Matrix",
      "topics": [
        "build_sub_matrix"
      ]
    },
    {
      "page": "cluster_pam",
      "title": "Estimate Optimal Number of Cluster for PAM Algorithm",
      "topics": [
        "cluster_pam",
        "cluster_pam_estimate"
      ]
    },
    {
      "page": "cluster_split",
      "title": "Split Cluster Sequence into List",
      "topics": [
        "cluster_split"
      ]
    },
    {
      "page": "do_msa",
      "title": "Run Modified Multiple Sequence Alignment",
      "topics": [
        "do_msa"
      ]
    },
    {
      "page": "extract_seqs",
      "title": "Extract Pasted Sequences from Each Chromosome",
      "topics": [
        "extract_seqs"
      ]
    },
    {
      "page": "get_score_matrix",
      "title": "Get Copy Number Sequence Similarity or Distance Matrix",
      "topics": [
        "get_score_matrix"
      ]
    },
    {
      "page": "ggseqlogo2",
      "title": "Quick sequence logo plot",
      "topics": [
        "geom_logo2",
        "ggseqlogo2"
      ]
    },
    {
      "page": "show_seq_logo",
      "title": "Show Copy Number Sequence Logos",
      "topics": [
        "show_seq_logo"
      ]
    },
    {
      "page": "show_seq_shape",
      "title": "Show Copy Number Sequence Shapes",
      "topics": [
        "show_seq_shape"
      ]
    },
    {
      "page": "transform_seqs",
      "title": "Coding Copy Number Segments with Letters.",
      "topics": [
        "transform_seqs"
      ]
    }
  ],
  "_readme": "https://github.com/ShixiangWang/CNVMotif/raw/HEAD/README.md",
  "_rundeps": [
    "abind",
    "backports",
    "base64enc",
    "BiocGenerics",
    "Biostrings",
    "boot",
    "broom",
    "bslib",
    "cachem",
    "car",
    "carData",
    "cli",
    "cluster",
    "colorspace",
    "corrplot",
    "cowplot",
    "cpp11",
    "crayon",
    "crosstalk",
    "data.table",
    "dendextend",
    "Deriv",
    "digest",
    "doBy",
    "dplyr",
    "DT",
    "ellipse",
    "emmeans",
    "estimability",
    "evaluate",
    "factoextra",
    "FactoMineR",
    "farver",
    "fastmap",
    "flashClust",
    "fontawesome",
    "forecast",
    "Formula",
    "fracdiff",
    "fs",
    "generics",
    "ggplot2",
    "ggpubr",
    "ggrepel",
    "ggsci",
    "ggseqlogo",
    "ggsignif",
    "glue",
    "gridExtra",
    "gtable",
    "highr",
    "htmltools",
    "htmlwidgets",
    "IRanges",
    "isoband",
    "jquerylib",
    "jsonlite",
    "knitr",
    "labeling",
    "later",
    "lattice",
    "lazyeval",
    "leaps",
    "lifecycle",
    "lme4",
    "lmtest",
    "magrittr",
    "MASS",
    "Matrix",
    "MatrixModels",
    "memoise",
    "mgcv",
    "microbenchmark",
    "mime",
    "minqa",
    "modelr",
    "msa",
    "multcompView",
    "mvtnorm",
    "nlme",
    "nloptr",
    "nnet",
    "numDeriv",
    "otel",
    "pbkrtest",
    "pillar",
    "pkgconfig",
    "polynom",
    "promises",
    "purrr",
    "quantreg",
    "R6",
    "rappdirs",
    "rbibutils",
    "RColorBrewer",
    "Rcpp",
    "RcppArmadillo",
    "RcppEigen",
    "Rdpack",
    "reformulas",
    "rlang",
    "rmarkdown",
    "rstatix",
    "S4Vectors",
    "S7",
    "sass",
    "scales",
    "scatterplot3d",
    "Seqinfo",
    "SparseM",
    "stringi",
    "stringr",
    "survival",
    "tibble",
    "tidyr",
    "tidyselect",
    "timeDate",
    "tinytex",
    "urca",
    "utf8",
    "vctrs",
    "viridis",
    "viridisLite",
    "withr",
    "xfun",
    "XVector",
    "yaml",
    "zoo"
  ],
  "_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"
    }
  ],
  "_score": 1.6989700043360187,
  "_indexed": true,
  "_nocasepkg": "cnvmotif",
  "_universes": [
    "shixiangwang"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.1.0",
      "date": "2026-06-04T07:26:58.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
      "fileid": "26dd9d99dc3971947d9e4f6738749b50e933839e33f501c6e4d6f70a732a68cf",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.1.0",
      "date": "2026-06-04T07:27:00.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
      "fileid": "ca6a5151f08d427f4e930b70049060d4dbc150b983d77c81763a2d512d6a5093",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "0.1.0",
      "date": "2026-06-04T07:27:14.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
      "fileid": "b61a52f020871e7659cf615b241a9151d22c2dd2e6378669230cec82e35f32cd",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "0.1.0",
      "date": "2026-06-04T07:27:02.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
      "fileid": "fda397f0916f8023c05a4f375178f630e02e41ca3612b05f9e52c0fa70429ccc",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.1.0",
      "date": "2026-06-04T07:26:40.000Z",
      "arch": "aarch64",
      "commit": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
      "fileid": "784dc5864b2dc30b3e7dd597b0e0d9cc0a8581099ec7f4b756e3dde20152f23d",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.1.0",
      "date": "2026-06-04T07:30:01.000Z",
      "arch": "x86_64",
      "commit": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
      "fileid": "631af956590207a7745c25880cd6ebf312f786241220ffa4144ba9d77f0362b8",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "0.1.0",
      "date": "2026-06-04T07:28:14.000Z",
      "arch": "aarch64",
      "commit": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
      "fileid": "fe69c32cb6d7352a5f3c21b1f18a1cb915a164db5407c2332d3d11ee26844dc6",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "0.1.0",
      "date": "2026-06-04T07:29:38.000Z",
      "arch": "x86_64",
      "commit": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
      "fileid": "c51f38e491775af633db7f8f4f4d74589aacdca1b7e35de99c9f95d05390b79c",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.1.0",
      "date": "2026-06-04T07:27:19.000Z",
      "arch": "emscripten",
      "commit": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
      "fileid": "e800bbef556ddff2373f8405b972a18cab57eb4404c348b0f67ecc3f7b988ef9",
      "status": "success",
      "buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.1.0",
      "date": "2026-06-04T07:25:59.000Z",
      "arch": "x86_64",
      "commit": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
      "fileid": "3a374b02b97c3f1acbc8bca42dbf544acca39a9cd7127dbef9a036cc16621916",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.1.0",
      "date": "2026-06-04T07:25:30.000Z",
      "arch": "x86_64",
      "commit": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
      "fileid": "bb0bddde7805cf0abf1dcae51d2bde2d461678cc15975ab02b2e9702d69d9afb",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "0.1.0",
      "date": "2026-06-04T07:25:34.000Z",
      "arch": "x86_64",
      "commit": "ad11585b11b89d7970552f9a805c0b5db9d669c3",
      "fileid": "9fbdadeae0b9dd129dc53b3c88e79ab37b30c93fc420bb58d59e8785747f1638",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/shixiangwang/actions/runs/26937076672"
    }
  ]
}