{ "_id": "6acb768efe5cc25786e906a6", "Package": "liftOver", "Title": "Changing genomic coordinate systems with rtracklayer::liftOver", "Version": "1.37.0", "Date": "2017-09-05", "Authors@R": "c(person(role=c(\"aut\", \"cre\"), \"Bioconductor Package Maintainer\", email = \"maintainer@bioconductor.org\"))", "Description": "The liftOver facilities developed in conjunction with the\nUCSC browser track infrastructure are available for\ntransforming data in GRanges formats. This is illustrated here\nwith an image of the EBI/NHGRI GWAS catalog that is, as of May\n10 2017, distributed with coordinates defined by NCBI build\nhg38.", "License": "Artistic-2.0", "Encoding": "UTF-8", "LazyData": "true", "VignetteBuilder": "knitr", "biocViews": "Workflow, BasicWorkflow", "NeedsCompilation": "no", "URL": "https://www.bioconductor.org/help/workflows/liftOver/", "RoxygenNote": "7.3.2", "Config/pak/sysreqs": "make libbz2-dev libicu-dev liblzma-dev libpng-dev\nlibxml2-dev libssl-dev libx11-dev xz-utils zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:40:35 UTC", "RemoteUrl": "https://github.com/bioc/liftOver", "RemoteRef": "HEAD", "RemoteSha": "1d1315664c5eecaa3732929b426faeb983685aa8", "Packaged": { "Date": "2026-10-11 11:35:44 UTC", "User": "root" }, "Author": "Bioconductor Package Maintainer [aut, cre]", "Maintainer": "Bioconductor Package Maintainer ", "_user": "bioc", "_type": "src", "_file": "liftOver_1.37.0.tar.gz", "_fileid": "https://r2.ropensci.org/2f7fb51a24210d9640dec93e5d363cf6129c791d53ffdba4d3a55144005069b8", "_filesize": 4438194, "_sha256": "2f7fb51a24210d9640dec93e5d363cf6129c791d53ffdba4d3a55144005069b8", "_expires": "2027-01-19T11:44:12.000Z", "_created": "2026-10-11T11:35:44.000Z", "_published": "2026-10-11T11:44:14.015Z", "_buildurl": "https://github.com/r-universe/bioc/actions/runs/38135814589", "_status": "success", "_host": "GitHub-Actions", "_bioccheck": { "error": 0, "warning": 0, "note": 11 }, "_upstream": "https://github.com/bioc/liftOver", "_commit": { "id": "1d1315664c5eecaa3732929b426faeb983685aa8", "author": "lshep ", "committer": "lshep ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777380035 }, "_maintainer": { "name": "Bioconductor Package Maintainer", "email": "maintainer@bioconductor.org", "login": "bioconductor-bot", "description": "", "uuid": 11681645 }, "_distro": "resolute", "_jobs": [ { "job": 114460419412, "time": 203, "config": "bioc-checks", "r": "4.6.1", "check": "NOTE", "artifact": "11700469976" }, { "job": 114460419363, "time": 437, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "11701260702" }, { "job": 114460419420, "time": 361, "config": "linux-release-x86_64", "r": "4.6.1", "check": "WARNING", "artifact": "11701345495" }, { "job": 114460419392, "time": 230, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "WARNING", "artifact": "11701360312" }, { "job": 114460419395, "time": 224, "config": "macos-release-arm64", "r": "4.6.1", "check": "WARNING", "artifact": "11700864272" }, { "job": 114459385320, "time": 341, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "11700244716" }, { "job": 114460419411, "time": 210, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "11700334867" }, { "job": 114460419403, "time": 425, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "11701340671" }, { "job": 114460419449, "time": 408, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "WARNING", "artifact": "11700759701" }, { "job": 114460419421, "time": 405, "config": "windows-release-x86_64", "r": "4.6.1", "check": "WARNING", "artifact": "11701515793" } ], "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.3.0", "role": "Depends" }, { "package": "gwascat", "role": "Depends" }, { "package": "GenomeInfoDb", "role": "Depends" }, { "package": "GenomicRanges", "role": "Depends" }, { "package": "rtracklayer", "role": "Depends" }, { "package": "Homo.sapiens", "role": "Depends" }, { "package": "BiocGenerics", "role": "Depends" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "BiocStyle", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.37.0", "bioc": "3.24", "repository": "workflows" }, { "branch": "release", "version": "1.36.0", "bioc": "3.23", "repository": "workflows" } ], "_topics": [ "workflow", "basicworkflow" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "followers": 476, "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_searchresults": 357, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/liftOver.html", "extra/manual.pdf" ], "_cranurl": false, "_exports": [], "_datasets": [ { "name": "cur", "title": "", "object": "cur", "class": [ "gwaswloc" ], "fields": [], "table": false, "tojson": false } ], "_help": [], "_rundeps": [ "abind", "AnnotationDbi", "AnnotationHub", "askpass", "BH", "Biobase", "BiocBaseUtils", "BiocFileCache", "BiocGenerics", "BiocIO", "BiocManager", "BiocParallel", "BiocVersion", "Biostrings", "bit", "bit64", "bitops", "blob", "BSgenome", "cachem", "cigarillo", "cli", "clipr", "codetools", "cpp11", "crayon", "curl", "data.table", "DBI", "dbplyr", "DelayedArray", "dplyr", "fastmap", "filelock", "formatR", "futile.logger", "futile.options", "generics", "GenomeInfoDb", "GenomicAlignments", "GenomicFeatures", "GenomicRanges", "glue", "GO.db", "graph", "gwascat", "hms", "Homo.sapiens", "httr", "httr2", "IRanges", "jsonlite", "KEGGREST", "lambda.r", "lattice", "lifecycle", "magrittr", "Matrix", "MatrixGenerics", "matrixStats", "memoise", "mime", "openssl", "org.Hs.eg.db", "OrganismDbi", "pillar", "pkgconfig", "png", "prettyunits", "progress", "purrr", "R6", "rappdirs", "RBGL", "RCurl", "readr", "restfulr", "Rhtslib", "rjson", "rlang", "Rsamtools", "RSQLite", "rtracklayer", "S4Arrays", "S4Vectors", "Seqinfo", "snow", "snpStats", "SparseArray", "stringi", "stringr", "SummarizedExperiment", "survival", "sys", "tibble", "tidyr", "tidyselect", "TxDb.Hsapiens.UCSC.hg19.knownGene", "tzdb", "UCSC.utils", "utf8", "VariantAnnotation", "vctrs", "vroom", "withr", "XML", "XVector", "yaml" ], "_vignettes": [ { "source": "liftov.Rmd", "filename": "liftov.html", "title": "Changing genomic coordinate systems with rtracklayer::liftOver", "author": "Bioconductor Maintainer", "engine": "knitr::rmarkdown", "headings": [ "Version Info", "Setup: The NHGRI GWAS catalog as an hg38-based GRanges", "Resource: The chain file for hg38 to hg19 transformation", "Action: liftOver" ], "created": "2017-09-15 20:21:29", "modified": "2025-07-18 18:16:11", "commits": 10 } ], "_score": 4.853698211776175, "_indexed": true, "_nocasepkg": "liftover", "_universes": [ "bioc", "bioconductor-bot" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.37.0", "date": "2026-10-11T11:41:33.000Z", "distro": "resolute", "commit": "1d1315664c5eecaa3732929b426faeb983685aa8", "fileid": "https://r2.ropensci.org/5741abe61babb6f95c40ee3cf495bdf97e2b22eafa3afe691c65ee5303613dd4", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38135814589" }, { "r": "4.6.1", "os": "linux", "version": "1.37.0", "date": "2026-10-11T11:40:53.000Z", "distro": "resolute", "commit": "1d1315664c5eecaa3732929b426faeb983685aa8", "fileid": "https://r2.ropensci.org/5313fdff90c7291efbb288105f809694aad45e91ae94905c9db8ef01d2f099af", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38135814589" }, { "r": "4.5.3", "os": "mac", "version": "1.37.0", "date": "2026-10-11T11:38:46.000Z", "commit": "1d1315664c5eecaa3732929b426faeb983685aa8", "fileid": "https://r2.ropensci.org/821cd1fe71732fad66213bb011cc0b2224e9d77cc1530c703f4f238f4e33f466", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38135814589" }, { "r": "4.6.1", "os": "mac", "version": "1.37.0", "date": "2026-10-11T11:38:44.000Z", "commit": "1d1315664c5eecaa3732929b426faeb983685aa8", "fileid": "https://r2.ropensci.org/0839c17a95c128915356b849caf3c0ce6ee3fa8ec6a58155f749db1ed82ad324", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38135814589" }, { "r": "4.6.0", "os": "wasm", "version": "1.37.0", "date": "2026-10-11T11:39:57.000Z", "commit": "1d1315664c5eecaa3732929b426faeb983685aa8", "fileid": "https://r2.ropensci.org/e9edb050f09727f9345f1d3f434db75ec0a30994f84f7038ba8d3a5d477006e9", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38135814589" }, { "r": "4.7.0", "os": "win", "version": "1.37.0", "date": "2026-10-11T11:41:17.000Z", "commit": "1d1315664c5eecaa3732929b426faeb983685aa8", "fileid": "https://r2.ropensci.org/7c107182a5b7290038e65e2cb08942f388062bb0b16fbc28e784a6733ed171b8", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38135814589" }, { "r": "4.5.3", "os": "win", "version": "1.37.0", "date": "2026-10-11T11:41:10.000Z", "commit": "1d1315664c5eecaa3732929b426faeb983685aa8", "fileid": "https://r2.ropensci.org/890a6781cd98096cb72f2f681be849f1c616a18d84789e188081ee2e044050d0", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38135814589" }, { "r": "4.6.1", "os": "win", "version": "1.37.0", "date": "2026-10-11T11:41:05.000Z", "commit": "1d1315664c5eecaa3732929b426faeb983685aa8", "fileid": "https://r2.ropensci.org/28177916efc4a91b4cbb239af2fd94251d0ae52825cff4d90582acf826a92c8f", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/38135814589" } ] }