{
  "_id": "6a37b0e53efcd9bda442674b",
  "Package": "OSTA.data",
  "Title": "OSTA book data",
  "Version": "1.4.0",
  "Description": "'OSTA.data' is a companion package for the \"Orchestrating\nSpatial Transcriptomics Analysis\" (OSTA) with Bioconductor\nonline book. Throughout OSTA, we rely on a set of publicly\navailable datasets that cover different sequencing- and\nimaging-based platforms, such as Visium, Visium HD, Xenium (10x\nGenomics) and CosMx (NanoString). In addition, we rely on\nscRNA-seq (Chromium) data for tasks, e.g., spot deconvolution\nand label transfer (i.e., supervised clustering). These data\nbeen deposited in an Open Storage Framework (OSF) repository,\nand can be queried and downloaded using functions from the\n'osfr' package. For convenience, we have implemented\n'OSTA.data' to query and retrieve data from our OSF node, and\ncache retrieved Zip archives using 'BiocFileCache'.",
  "Authors@R": "c(\nperson(\"Yixing E.\", \"Dong\",\nrole=c(\"aut\", \"cre\"),\nemail=\"estelladong729@gmail.com\",\ncomment=c(ORCID=\"0009-0003-5115-5686\")),\nperson(\"Helena L.\", \"Crowell\",\nrole=c(\"aut\"),\nemail=\"helena@crowell.eu\",\ncomment=c(ORCID=\"0000-0002-4801-1767\")),\nperson(\"Vince\", \"Carey\",\nrole=c(\"aut\"),\nemail=\"stvjc@channing.harvard.edu\",\ncomment=c(ORCID=\"0000-0003-4046-0063\")))",
  "biocViews": "DataImport, DataRepresentation, ExperimentHubSoftware,\nInfrastructure, ImmunoOncology, GeneExpression,\nTranscriptomics, SingleCell, Spatial",
  "Encoding": "UTF-8",
  "RoxygenNote": "7.3.2",
  "License": "Artistic-2.0",
  "VignetteBuilder": "knitr",
  "URL": "https://github.com/estellad/OSTA.data",
  "BugReports": "https://github.com/estellad/OSTA.data",
  "Config/pak/sysreqs": "cmake make libicu-dev libuv1-dev libssl-dev",
  "Repository": "https://bioc-release.r-universe.dev",
  "Date/Publication": "2026-04-28 13:04:31 UTC",
  "RemoteUrl": "https://github.com/bioc/OSTA.data",
  "RemoteRef": "RELEASE_3_23",
  "RemoteSha": "cef637bcd10f4aca7675e5695a611370d7fd2a33",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-21 09:30:23 UTC",
    "User": "root"
  },
  "Author": "Yixing E. Dong [aut, cre] (ORCID:\n<https://orcid.org/0009-0003-5115-5686>),\nHelena L. Crowell [aut] (ORCID:\n<https://orcid.org/0000-0002-4801-1767>),\nVince Carey [aut] (ORCID: <https://orcid.org/0000-0003-4046-0063>)",
  "Maintainer": "Yixing E. Dong <estelladong729@gmail.com>",
  "MD5sum": "d93e016ced64c572a64a9fee7b935b3b",
  "_user": "bioc-release",
  "_type": "src",
  "_file": "OSTA.data_1.4.0.tar.gz",
  "_fileid": "8eeab19ac670d7a6e255c0ed584877ec0c1747379f7aa3a098b582123dae4c18",
  "_filesize": 511791,
  "_sha256": "8eeab19ac670d7a6e255c0ed584877ec0c1747379f7aa3a098b582123dae4c18",
  "_created": "2026-06-21T09:30:23.000Z",
  "_published": "2026-06-21T09:37:41.344Z",
  "_jobs": [
    {
      "job": 82558865641,
      "time": 172,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7773986091"
    },
    {
      "job": 82558865664,
      "time": 329,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7774007002"
    },
    {
      "job": 82558865656,
      "time": 382,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7774014140"
    },
    {
      "job": 82558865661,
      "time": 180,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7773987114"
    },
    {
      "job": 82558865673,
      "time": 221,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7773992853"
    },
    {
      "job": 82558215401,
      "time": 614,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7773961541"
    },
    {
      "job": 82558865649,
      "time": 161,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7773984762"
    },
    {
      "job": 82558865667,
      "time": 235,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7773994912"
    },
    {
      "job": 82558865672,
      "time": 228,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7773993819"
    },
    {
      "job": 82558865655,
      "time": 235,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7773994834"
    }
  ],
  "_bioccheck": {
    "error": 0,
    "warning": 0,
    "note": 4
  },
  "_buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899888797",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/OSTA.data",
  "_commit": {
    "id": "cef637bcd10f4aca7675e5695a611370d7fd2a33",
    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to even y prior to creation of RELEASE_3_23 branch\n",
    "time": 1777381471
  },
  "_maintainer": {
    "name": "Yixing E. Dong",
    "email": "estelladong729@gmail.com",
    "login": "estellad",
    "description": "There's always more to learn. Currently doing PhD in Switzerland.",
    "uuid": 29610938
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.5",
      "role": "Depends"
    },
    {
      "package": "osfr",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "BiocFileCache",
      "role": "Imports"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "DropletUtils",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "VisiumIO",
      "role": "Suggests"
    },
    {
      "package": "SpatialExperimentIO",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-30",
      "n": 3
    },
    {
      "week": "2025-35",
      "n": 3
    },
    {
      "week": "2025-47",
      "n": 3
    },
    {
      "week": "2026-18",
      "n": 1
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.5.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.4.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "dataimport",
    "datarepresentation",
    "experimenthubsoftware",
    "infrastructure",
    "immunooncology",
    "geneexpression",
    "transcriptomics",
    "singlecell",
    "spatial"
  ],
  "_stars": 2,
  "_contributors": [
    {
      "user": "helenalc",
      "count": 28,
      "uuid": 14542264
    },
    {
      "user": "estellad",
      "count": 24,
      "uuid": 29610938
    },
    {
      "user": "jwokaty",
      "count": 4,
      "uuid": 1744257
    },
    {
      "user": "vjcitn",
      "count": 1,
      "uuid": 4624066
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 440,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_devurl": "https://github.com/estellad/osta.data",
  "_searchresults": 134,
  "_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/OSTA.data.html",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/estellad/osta.data",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "OSTA.data_list",
    "OSTA.data_load"
  ],
  "_help": [
    {
      "page": "OSTA.data",
      "title": "Datasets used in OSTA",
      "topics": [
        "OSTA.data",
        "OSTA.data_list",
        "OSTA.data_load"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/OSTA.data/raw/RELEASE_3_23/README.md",
  "_rundeps": [
    "askpass",
    "BiocFileCache",
    "bit",
    "bit64",
    "blob",
    "cachem",
    "cli",
    "cpp11",
    "crul",
    "curl",
    "DBI",
    "dbplyr",
    "dplyr",
    "fastmap",
    "filelock",
    "fs",
    "generics",
    "glue",
    "httpcode",
    "httr",
    "httr2",
    "jsonlite",
    "lifecycle",
    "magrittr",
    "memoise",
    "mime",
    "openssl",
    "osfr",
    "pillar",
    "pkgconfig",
    "purrr",
    "R6",
    "rappdirs",
    "Rcpp",
    "rlang",
    "RSQLite",
    "stringi",
    "stringr",
    "sys",
    "tibble",
    "tidyr",
    "tidyselect",
    "triebeard",
    "urltools",
    "utf8",
    "vctrs",
    "withr"
  ],
  "_vignettes": [
    {
      "source": "OSTA.data.Rmd",
      "filename": "OSTA.data.html",
      "title": "OSTA.data",
      "author": "Yixing E Dong, Helena L Crowell, Vincent J Carey",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Retrieval",
        "Importing",
        "Xenium",
        "CosMx",
        "Visium",
        "VisiumHD",
        "Chromium",
        "Session"
      ],
      "created": "2025-02-12 12:30:12",
      "modified": "2025-11-20 16:00:56",
      "commits": 5
    }
  ],
  "_score": 6.206286044412432,
  "_indexed": false,
  "_nocasepkg": "osta.data",
  "_universes": [
    "bioc-release"
  ],
  "_indexurl": "https://bioc.r-universe.dev/OSTA.data",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.4.0",
      "date": "2026-06-21T09:34:19.000Z",
      "distro": "noble",
      "commit": "cef637bcd10f4aca7675e5695a611370d7fd2a33",
      "fileid": "e704a5b356b1989fd579813e2f228bcc6885e29077e18801c61db36602446350",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899888797"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.4.0",
      "date": "2026-06-21T09:34:48.000Z",
      "distro": "noble",
      "commit": "cef637bcd10f4aca7675e5695a611370d7fd2a33",
      "fileid": "776636f79615e13de52d7c5f8c0e75f9992df026925e0b85332c6fb0152a1fe0",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899888797"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.4.0",
      "date": "2026-06-21T09:32:15.000Z",
      "commit": "cef637bcd10f4aca7675e5695a611370d7fd2a33",
      "fileid": "f19885ff67cd0d73ac043fe6bf94f77878f7924e3b84d286d524ca76999b2c97",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899888797"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.4.0",
      "date": "2026-06-21T09:32:38.000Z",
      "commit": "cef637bcd10f4aca7675e5695a611370d7fd2a33",
      "fileid": "9f2de660cef486883c3ab71949a353acb8b3fc2a5d3569657d5a4f644fbe1cc7",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899888797"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.4.0",
      "date": "2026-06-21T09:33:42.000Z",
      "commit": "cef637bcd10f4aca7675e5695a611370d7fd2a33",
      "fileid": "b5b5a85b948d2758b5626e38c675981eed506568844c590ff27dc3f066b99fe7",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899888797"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.4.0",
      "date": "2026-06-21T09:32:31.000Z",
      "commit": "cef637bcd10f4aca7675e5695a611370d7fd2a33",
      "fileid": "bf2e65e7a765cf47793b037b681563344a69e82408b6f67a3c434df753d3bc3e",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899888797"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.4.0",
      "date": "2026-06-21T09:32:26.000Z",
      "commit": "cef637bcd10f4aca7675e5695a611370d7fd2a33",
      "fileid": "70074e926851e2b2c3509d031cff88d30bd7f2822343b9639cfc606537e97d77",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899888797"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.4.0",
      "date": "2026-06-21T09:32:28.000Z",
      "commit": "cef637bcd10f4aca7675e5695a611370d7fd2a33",
      "fileid": "d6eddd791575ecf64c4c90aed43f9f9c6ed6754a2fe063f678d2fa759ad849c2",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/27899888797"
    }
  ]
}