{ "_id": "6ac62783f511ae58c09a6d0e", "Package": "loopcityData", "Title": "Experimental Data for the loopcity Package", "Version": "0.99.0", "Authors@R": "c(\nperson(\"Sarah\", \"Parker\", role = c(\"aut\", \"cre\"),\nemail = \"smp3800@gmail.com\",\ncomment = c(ORCID = \"0000-0002-2700-3979\")),\nperson(\"JP\", \"Flores\", role = \"aut\",\nemail = \"jflores@unc.edu\"))", "Description": "Provides Hi-C loop calls and chromatin interaction data\nused in examples and vignettes for the loopcity package.\nIncludes GM12878 Hi-C loop calls at 10 kb resolution (Rao et\nal. 2014, GSE63525), shipped directly as GInteractions objects.\nK562 Hi-C contact matrices and CTCF and H3K27ac ChIP-seq signal\ntracks from Bond et al. 2023 (GSE214123, GSE213908) are hosted\non ExperimentHub and retrieved on demand.", "License": "CC BY 4.0", "Encoding": "UTF-8", "VignetteBuilder": "knitr", "biocViews": "ExperimentHub, ExperimentData, Homo_sapiens_Data,\nSequencingData", "RoxygenNote": "7.3.2", "BugReports": "https://github.com/jpflores-13/loopcityData/issues", "URL": "https://github.com/jpflores-13/loopcityData", "Config/pak/sysreqs": "libicu-dev libpng-dev libssl-dev zlib1g-dev", "Repository": "https://biocstaging.r-universe.dev", "Date/Publication": "2026-06-15 19:55:34 UTC", "RemoteUrl": "https://github.com/BiocStaging/loopcityData", "RemoteRef": "HEAD", "RemoteSha": "e6541c038f810893ce044c9fbec9be966245208f", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-07 09:14:27 UTC", "User": "root" }, "Author": "Sarah Parker [aut, cre] (ORCID:\n),\nJP Flores [aut]", "Maintainer": "Sarah Parker ", "_user": "biocstaging", "_type": "src", "_file": "loopcityData_0.99.0.tar.gz", "_fileid": "https://r2.ropensci.org/d7ba5f69b7ebe1f0b3c9be4560a9e040b30d0d27f07b5b6c7e6d51108a24b83f", "_filesize": 89753, "_sha256": "d7ba5f69b7ebe1f0b3c9be4560a9e040b30d0d27f07b5b6c7e6d51108a24b83f", "_expires": "2027-01-15T11:05:36.000Z", "_created": "2026-10-07T09:14:27.000Z", "_published": "2026-10-07T11:05:39.229Z", "_buildurl": "https://github.com/r-universe/biocstaging/actions/runs/37596500513", "_status": "success", "_host": "GitHub-Actions", "_bioccheck": { "error": 0, "warning": 0, "note": 2 }, "_upstream": "https://github.com/BiocStaging/loopcityData", "_commit": { "id": "e6541c038f810893ce044c9fbec9be966245208f", "author": "JP Flores ", "committer": "JP Flores ", "message": "Replace exportPattern with explicit exports for BiocCheck\n", "time": 1781553334 }, "_maintainer": { "name": "Sarah Parker", "email": "smp3800@gmail.com", "login": "sarmapar", "twitter": "@sarahinsilico", "description": "", "uuid": 57263711, "orcid": "0000-0002-2700-3979" }, "_distro": "resolute", "_jobs": [ { "job": 112719467800, "time": 161, "config": "bioc-checks", "r": "4.6.1", "check": "NOTE", "artifact": "11472244476" }, { "job": 112719467955, "time": 173, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "11472601457" }, { "job": 112719467883, "time": 176, "config": "linux-release-x86_64", "r": "4.6.1", "check": "WARNING", "artifact": "11472367236" }, { "job": 112719467772, "time": 173, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "WARNING", "artifact": "11477697399" }, { "job": 112719467754, "time": 157, "config": "macos-release-arm64", "r": "4.6.1", "check": "WARNING", "artifact": "11478137798" }, { "job": 112714362376, "time": 278, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "11471518168" }, { "job": 112719467767, "time": 117, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "11472720970" }, { "job": 112719468070, "time": 141, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "11472178195" }, { "job": 112719467940, "time": 137, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "WARNING", "artifact": "11472365596" }, { "job": 112719467980, "time": 133, "config": "windows-release-x86_64", "r": "4.6.1", "check": "WARNING", "artifact": "11471908296" } ], "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.5.0", "role": "Depends" }, { "package": "ExperimentHub", "role": "Depends" }, { "package": "AnnotationHub", "role": "Imports" }, { "package": "InteractionSet", "role": "Imports" }, { "package": "loopcity", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "BiocStyle", "role": "Suggests" } ], "_owner": "biocstaging", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-24", "n": 3 }, { "week": "2026-25", "n": 1 } ], "_tags": [], "_topics": [ "experimenthub", "experimentdata", "homo_sapiens_data", "sequencingdata" ], "_stars": 0, "_contributors": [ { "user": "jpflores-13", "count": 3, "uuid": 64728821 } ], "_userbio": { "uuid": 278472782, "type": "organization", "name": "BiocStaging", "followers": 2 }, "_downloads": { "count": 0, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/loopcityData" }, "_devurl": "https://github.com/jpflores-13/loopcitydata", "_searchresults": 7, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/loopcityData.html", "extra/manual.pdf", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md" ], "_cranurl": false, "_exports": [ "K562_CTCF_bw", "K562_H3K27ac_bw", "K562_hic", "K562_loops" ], "_datasets": [ { "name": "GM12878_10KbLoops", "title": "", "object": "GM12878_10KbLoops", "file": "GM12878_10KbLoops.rda", "class": [ "GInteractions" ], "fields": [], "table": false, "tojson": false }, { "name": "GM12878_10KbLoopsChr21", "title": "", "object": "GM12878_10KbLoopsChr21", "file": "GM12878_10KbLoopsChr21.rda", "class": [ "GInteractions" ], "fields": [], "table": false, "tojson": false } ], "_help": [], "_readme": "https://github.com/BiocStaging/loopcityData/raw/HEAD/README.md", "_rundeps": [ "abind", "AnnotationDbi", "AnnotationHub", "askpass", "Biobase", "BiocBaseUtils", "BiocFileCache", "BiocGenerics", "BiocManager", "BiocVersion", "Biostrings", "bit", "bit64", "blob", "cachem", "cli", "cpp11", "crayon", "curl", "DBI", "dbplyr", "DelayedArray", "dplyr", "ExperimentHub", "fastmap", "filelock", "generics", "GenomicRanges", "glue", "httr", "httr2", "InteractionSet", "IRanges", "jsonlite", "KEGGREST", "lattice", "lifecycle", "magrittr", "Matrix", "MatrixGenerics", "matrixStats", "memoise", "mime", "openssl", "pillar", "pkgconfig", "png", "purrr", "R6", "rappdirs", "Rcpp", "rlang", "RSQLite", "S4Arrays", "S4Vectors", "Seqinfo", "SparseArray", "stringi", "stringr", "SummarizedExperiment", "sys", "tibble", "tidyr", "tidyselect", "utf8", "vctrs", "withr", "XVector", "yaml" ], "_vignettes": [ { "source": "loopcityData.Rmd", "filename": "loopcityData.html", "title": "Overview of loopcityData", "engine": "knitr::rmarkdown", "headings": [ "Overview", "Shipped datasets", "ExperimentHub datasets", "Data provenance", "Session info" ], "created": "2026-06-12 04:07:13", "modified": "2026-06-12 04:42:03", "commits": 2 } ], "_score": 3, "_indexed": true, "_nocasepkg": "loopcitydata", "_universes": [ "biocstaging", "sarmapar", "jpflores-13" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.99.0", "date": "2026-10-07T09:24:27.000Z", "distro": "resolute", "commit": "e6541c038f810893ce044c9fbec9be966245208f", "fileid": "https://r2.ropensci.org/872bf8a92fb372b58ec78510afb34c51f56f73cb7785025914715b68a19900f5", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/biocstaging/actions/runs/37596500513" }, { "r": "4.6.1", "os": "linux", "version": "0.99.0", "date": "2026-10-07T09:24:32.000Z", "distro": "resolute", "commit": "e6541c038f810893ce044c9fbec9be966245208f", "fileid": "https://r2.ropensci.org/81bd0ad9a073327bd44aab393c99289ca31dca30db847909cb2b9474184ceb84", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/biocstaging/actions/runs/37596500513" }, { "r": "4.5.3", "os": "mac", "version": "0.99.0", "date": "2026-10-07T11:00:56.000Z", "commit": "e6541c038f810893ce044c9fbec9be966245208f", "fileid": "https://r2.ropensci.org/95014d47d514c9687873f76fe0d6fb7100f7bbf677170fe91163e1241ed5cf0c", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/biocstaging/actions/runs/37596500513" }, { "r": "4.6.1", "os": "mac", "version": "0.99.0", "date": "2026-10-07T11:04:10.000Z", "commit": "e6541c038f810893ce044c9fbec9be966245208f", "fileid": "https://r2.ropensci.org/edec5bf5094c48c575744fa7a6d6fc5e0b91b024efd19ef51a41c94998dd02d4", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/biocstaging/actions/runs/37596500513" }, { "r": "4.6.0", "os": "wasm", "version": "0.99.0", "date": "2026-10-07T09:24:30.000Z", "commit": "e6541c038f810893ce044c9fbec9be966245208f", "fileid": "https://r2.ropensci.org/763e18935eb151afe870360820931107e96c727df30fad064255be4bfa6ca7d0", "status": "success", "buildurl": "https://github.com/r-universe/biocstaging/actions/runs/37596500513" }, { "r": "4.7.0", "os": "win", "version": "0.99.0", "date": "2026-10-07T09:16:22.000Z", "commit": "e6541c038f810893ce044c9fbec9be966245208f", "fileid": "https://r2.ropensci.org/ebe35b88480b290ad6fac6b3d4bb03a69321286c49adc97d858c3ba09e15da56", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/biocstaging/actions/runs/37596500513" }, { "r": "4.5.3", "os": "win", "version": "0.99.0", "date": "2026-10-07T09:16:16.000Z", "commit": "e6541c038f810893ce044c9fbec9be966245208f", "fileid": "https://r2.ropensci.org/f7eff6df78b404f79bd5327c351d4fbe58d3e1de88f2821d05aebde95278ba7f", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/biocstaging/actions/runs/37596500513" }, { "r": "4.6.1", "os": "win", "version": "0.99.0", "date": "2026-10-07T09:16:18.000Z", "commit": "e6541c038f810893ce044c9fbec9be966245208f", "fileid": "https://r2.ropensci.org/b35959ec68ef981318bede9817299b054dee580ceb8508e8f4eb889ad15d21d0", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/biocstaging/actions/runs/37596500513" } ] }