{
  "_id": "6a1ac9f41d7bb097a09dcf4d",
  "Package": "immunogenViewer",
  "Type": "Package",
  "Title": "Visualization and evaluation of protein immunogens",
  "Version": "1.7.0",
  "Authors@R": "c(person(\"Katharina\", \"Waury\", email = \"kathiwaury@gmail.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-8570-7640\")))",
  "Description": "Plots protein properties and visualizes position of\npeptide immunogens within protein sequence. Allows evaluation\nof immunogens based on structural and functional annotations to\ninfer suitability for antibody-based methods aiming to detect\nnative proteins.",
  "License": "Apache License (>= 2)",
  "Encoding": "UTF-8",
  "Config/testthat/edition": "3",
  "RoxygenNote": "7.3.1",
  "VignetteBuilder": "knitr",
  "biocViews": "FeatureExtraction, Proteomics, Software, Visualization",
  "URL": "https://github.com/kathiwaury/immunogenViewer",
  "BugReports": "https://github.com/kathiwaury/immunogenViewer/issues",
  "Config/pak/sysreqs": "libicu-dev libpng-dev libssl-dev zlib1g-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 13:03:26 UTC",
  "RemoteUrl": "https://github.com/bioc/immunogenViewer",
  "RemoteRef": "HEAD",
  "RemoteSha": "39b2b138b2f76fc3d1cf301b02ce0a279a1b9c80",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-30 07:53:59 UTC",
    "User": "root"
  },
  "Author": "Katharina Waury [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-8570-7640>)",
  "Maintainer": "Katharina Waury <kathiwaury@gmail.com>",
  "MD5sum": "bcbffcdfd615a22189665f9c314c1406",
  "_user": "bioc",
  "_type": "src",
  "_file": "immunogenViewer_1.7.0.tar.gz",
  "_fileid": "78bba8929bd3bd290ed2ab6c9a3115642987b6798c7096f272315a63d1b00b24",
  "_filesize": 321784,
  "_sha256": "78bba8929bd3bd290ed2ab6c9a3115642987b6798c7096f272315a63d1b00b24",
  "_created": "2026-05-30T07:53:59.000Z",
  "_published": "2026-05-30T11:28:52.738Z",
  "_jobs": [
    {
      "job": 78634837750,
      "time": 166,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7306644922"
    },
    {
      "job": 78634837752,
      "time": 246,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7306653137"
    },
    {
      "job": 78634837754,
      "time": 262,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7306654756"
    },
    {
      "job": 78634837757,
      "time": 190,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7307843847"
    },
    {
      "job": 78634837756,
      "time": 231,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7307847119"
    },
    {
      "job": 78634650834,
      "time": 214,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7306627932"
    },
    {
      "job": 78634837746,
      "time": 124,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7306640583"
    },
    {
      "job": 78634837759,
      "time": 202,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7306648694"
    },
    {
      "job": 78634837768,
      "time": 188,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7306646960"
    },
    {
      "job": 78634837760,
      "time": 205,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7306648675"
    }
  ],
  "_bioccheck": {
    "error": 0,
    "warning": 0,
    "note": 7
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26678508333",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/immunogenViewer",
  "_commit": {
    "id": "39b2b138b2f76fc3d1cf301b02ce0a279a1b9c80",
    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n",
    "time": 1777381406
  },
  "_maintainer": {
    "name": "Katharina Waury",
    "email": "kathiwaury@gmail.com",
    "login": "kathiwaury",
    "description": "Bioinformatics researcher",
    "uuid": 47524923,
    "orcid": "0000-0002-8570-7640"
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.0",
      "role": "Depends"
    },
    {
      "package": "ggplot2",
      "role": "Imports"
    },
    {
      "package": "httr",
      "role": "Imports"
    },
    {
      "package": "jsonlite",
      "role": "Imports"
    },
    {
      "package": "patchwork",
      "role": "Imports"
    },
    {
      "package": "UniProt.ws",
      "role": "Imports"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    },
    {
      "package": "DT",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-28",
      "n": 2
    },
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.7.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.6.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "featureextraction",
    "proteomics",
    "software",
    "visualization"
  ],
  "_stars": 0,
  "_contributors": [
    {
      "user": "kathiwaury",
      "count": 30,
      "uuid": 47524923
    },
    {
      "user": "gcroci2",
      "count": 4,
      "uuid": 55382553
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 186,
    "source": "https://www.bioconductor.org/packages/stats/bioc/immunogenViewer"
  },
  "_devurl": "https://github.com/kathiwaury/immunogenviewer",
  "_searchresults": 10,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/immunogenViewer.html",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/kathiwaury/immunogenviewer",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "addImmunogen",
    "addImmunogenList",
    "evaluateImmunogen",
    "getProteinFeatures",
    "plotImmunogen",
    "plotProtein",
    "removeImmunogen",
    "renameImmunogen"
  ],
  "_help": [
    {
      "page": "addImmunogen",
      "title": "Add an immunogen to the Protein DataFrame",
      "topics": [
        "addImmunogen"
      ]
    },
    {
      "page": "addImmunogenList",
      "title": "Add multiple immunogens to the Protein DataFrame",
      "topics": [
        "addImmunogenList"
      ]
    },
    {
      "page": "evaluateImmunogen",
      "title": "Create a summary DataFrame of the structural and functional properties of an immunogen",
      "topics": [
        "evaluateImmunogen"
      ]
    },
    {
      "page": "getProteinFeatures",
      "title": "Retrieve structural and functional features to create a protein DataFrame",
      "topics": [
        "getProteinFeatures"
      ]
    },
    {
      "page": "plotImmunogen",
      "title": "Plot protein features of one immunogen region",
      "topics": [
        "plotImmunogen"
      ]
    },
    {
      "page": "plotProtein",
      "title": "Plot protein features with immunogens highlighted",
      "topics": [
        "plotProtein"
      ]
    },
    {
      "page": "removeImmunogen",
      "title": "Remove an existing immunogen",
      "topics": [
        "removeImmunogen"
      ]
    },
    {
      "page": "renameImmunogen",
      "title": "Rename an existing immunogen",
      "topics": [
        "renameImmunogen"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/immunogenViewer/raw/HEAD/README.md",
  "_rundeps": [
    "AnnotationDbi",
    "askpass",
    "Biobase",
    "BiocBaseUtils",
    "BiocFileCache",
    "BiocGenerics",
    "Biostrings",
    "bit",
    "bit64",
    "blob",
    "cachem",
    "cli",
    "cpp11",
    "crayon",
    "curl",
    "DBI",
    "dbplyr",
    "dplyr",
    "farver",
    "fastmap",
    "filelock",
    "generics",
    "ggplot2",
    "glue",
    "gtable",
    "hms",
    "httr",
    "httr2",
    "IRanges",
    "isoband",
    "jsonlite",
    "KEGGREST",
    "labeling",
    "lifecycle",
    "magrittr",
    "memoise",
    "mime",
    "openssl",
    "patchwork",
    "pillar",
    "pkgconfig",
    "png",
    "prettyunits",
    "progress",
    "purrr",
    "R6",
    "rappdirs",
    "RColorBrewer",
    "rjsoncons",
    "rlang",
    "RSQLite",
    "S4Vectors",
    "S7",
    "scales",
    "Seqinfo",
    "stringi",
    "stringr",
    "sys",
    "tibble",
    "tidyr",
    "tidyselect",
    "UniProt.ws",
    "utf8",
    "vctrs",
    "viridisLite",
    "withr",
    "XVector"
  ],
  "_vignettes": [
    {
      "source": "immunogenViewer_vignette.Rmd",
      "filename": "immunogenViewer_vignette.html",
      "title": "Using immunogenViewer to evaluate and choose antibodies",
      "author": "Katharina Waury",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Installation",
        "User guide",
        "Retrieving the protein features",
        "Adding immunogens to the protein dataframe",
        "Renaming an immunogen",
        "Removing an immunogen",
        "Visualizing the protein with the immunogens highlighted",
        "Visualizing a specific immunogen",
        "Evaluating the immunogens",
        "Important Notes",
        "References",
        "Session info"
      ],
      "created": "2024-05-01 11:44:07",
      "modified": "2025-02-08 20:13:33",
      "commits": 4
    }
  ],
  "_score": 4.176091259055681,
  "_indexed": true,
  "_nocasepkg": "immunogenviewer",
  "_universes": [
    "bioc",
    "kathiwaury"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.7.0",
      "date": "2026-05-30T07:56:36.000Z",
      "distro": "noble",
      "commit": "39b2b138b2f76fc3d1cf301b02ce0a279a1b9c80",
      "fileid": "1982d69aa49d1d3828818209cfdccfa3419d52a3055961b45e3198af283d6018",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678508333"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.7.0",
      "date": "2026-05-30T07:56:46.000Z",
      "distro": "noble",
      "commit": "39b2b138b2f76fc3d1cf301b02ce0a279a1b9c80",
      "fileid": "784f01c3d2a98e79418737fec822e667a2abf6183efecf6658af2b61e06d0130",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678508333"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.7.0",
      "date": "2026-05-30T11:26:20.000Z",
      "commit": "39b2b138b2f76fc3d1cf301b02ce0a279a1b9c80",
      "fileid": "ef5b3d337e83ecd45decfdb810458f84b93b58e96a398c2988630bafa1a924cd",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678508333"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.7.0",
      "date": "2026-05-30T11:26:27.000Z",
      "commit": "39b2b138b2f76fc3d1cf301b02ce0a279a1b9c80",
      "fileid": "b54010184182e3f282aaf87b6193ba8e734f82b879246799a865ff7fcab9fb48",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678508333"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.7.0",
      "date": "2026-05-30T07:56:29.000Z",
      "commit": "39b2b138b2f76fc3d1cf301b02ce0a279a1b9c80",
      "fileid": "1992f7fc957cacbef2c58f3f7ce6034ff98680d30d670f5ccc469475715f5836",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678508333"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.7.0",
      "date": "2026-05-30T07:55:27.000Z",
      "commit": "39b2b138b2f76fc3d1cf301b02ce0a279a1b9c80",
      "fileid": "e2ad2d2616d22f44d120cd7fbbd32c7d26c855afd48eb3a95c63133843ae8374",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678508333"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.7.0",
      "date": "2026-05-30T07:55:25.000Z",
      "commit": "39b2b138b2f76fc3d1cf301b02ce0a279a1b9c80",
      "fileid": "cf4da410b9faf2e616a470e9cf3a91528686917a1fa825746be7290485a8a669",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678508333"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.7.0",
      "date": "2026-05-30T07:55:31.000Z",
      "commit": "39b2b138b2f76fc3d1cf301b02ce0a279a1b9c80",
      "fileid": "dfc8ae62bf5c4e1308f769deafb34870f0dc4dba3831dc17e125bb78a21c9531",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26678508333"
    }
  ]
}