{ "_id": "6a1e94b71d7bb097a0a6b42a", "Package": "MotifDb", "Type": "Package", "Title": "An Annotated Collection of Protein-DNA Binding Sequence Motifs", "Version": "1.55.0", "Date": "2025-03-12", "Author": "Paul Shannon, Matt Richards", "Maintainer": "Paul Shannon ", "Description": "More than 9900 annotated position frequency matrices from\n14 public sources, for multiple organisms.", "License": "Artistic-2.0 | file LICENSE", "License_is_FOSS": "no", "License_restricts_use": "yes", "LazyLoad": "yes", "biocViews": "MotifAnnotation", "VignetteBuilder": "knitr, rmarkdown, formatR, markdown", "Encoding": "UTF-8", "Config/pak/sysreqs": "make libbz2-dev liblzma-dev libxml2-dev libssl-dev\nxz-utils zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:36:45 UTC", "RemoteUrl": "https://github.com/bioc/MotifDb", "RemoteRef": "HEAD", "RemoteSha": "b859f52857979a7035bf507388a0a6f98e104747", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-02 08:22:18 UTC", "User": "root" }, "MD5sum": "616c6554fdf446cf35c718df8e064243", "_user": "bioc", "_type": "src", "_file": "MotifDb_1.55.0.tar.gz", "_fileid": "dd5295585176eab41771bc7010cd71f1016f7aa64f07261de280eec422976bc8", "_filesize": 4570632, "_sha256": "dd5295585176eab41771bc7010cd71f1016f7aa64f07261de280eec422976bc8", "_created": "2026-06-02T08:22:18.000Z", "_published": "2026-06-02T08:30:47.117Z", "_jobs": [ { "job": 79029400270, "time": 198, "config": "bioc-checks", "r": "4.6.0", "check": "ERROR", "artifact": "7352657083" }, { "job": 79029400184, "time": 421, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "7352730396" }, { "job": 79029400172, "time": 381, "config": "linux-release-x86_64", "r": "4.6.0", "check": "WARNING", "artifact": "7352718114" }, { "job": 79029400238, "time": 340, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "WARNING", "artifact": "7352705964" }, { "job": 79029400278, "time": 413, "config": "macos-release-arm64", "r": "4.6.0", "check": "WARNING", "artifact": "7352735507" }, { "job": 79028626723, "time": 283, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7352589578" }, { "job": 79029400177, "time": 151, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7352641210" }, { "job": 79029400236, "time": 359, "config": "windows-devel", "r": "4.7.0", "check": "WARNING", "artifact": "7352710406" }, { "job": 79029400202, "time": 357, "config": "windows-oldrel", "r": "4.5.3", "check": "WARNING", "artifact": "7352710114" }, { "job": 79029400173, "time": 338, "config": "windows-release", "r": "4.6.0", "check": "WARNING", "artifact": "7352703127" } ], "_bioccheck": { "error": 2, "warning": 1, "note": 12 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26807477904", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/MotifDb", "_commit": { "id": "b859f52857979a7035bf507388a0a6f98e104747", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777379805 }, "_maintainer": { "name": "Paul Shannon", "email": "pshannon@systemsbiology.org", "login": "pshannon", "description": "", "uuid": 103459 }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "methods", "role": "Depends" }, { "package": "BiocGenerics", "role": "Depends" }, { "package": "S4Vectors", "role": "Depends" }, { "package": "IRanges", "role": "Depends" }, { "package": "GenomicRanges", "role": "Depends" }, { "package": "Biostrings", "role": "Depends" }, { "package": "rtracklayer", "role": "Imports" }, { "package": "splitstackshape", "role": "Imports" }, { "package": "RUnit", "role": "Suggests" }, { "package": "seqLogo", "role": "Suggests" }, { "package": "BiocStyle", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "formatR", "role": "Suggests" }, { "package": "markdown", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 3, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.55.0", "bioc": "3.24" }, { "branch": "release", "version": "1.54.0", "bioc": "3.23" } ], "_topics": [ "motifannotation" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 1297, "source": "https://www.bioconductor.org/packages/stats/bioc/MotifDb" }, "_mentions": 17, "_searchresults": 488, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/MotifDb.html", "extra/NEWS.html", "extra/NEWS.txt", "manual.pdf" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "associateTranscriptionFactors", "export", "geneToMotif", "MotifDb", "motifToGene", "query", "show", "subset" ], "_help": [ { "page": "associateTranscriptionFactors", "title": "associateTranscriptionFactors", "topics": [ "associateTranscriptionFactors", "associateTranscriptionFactors,MotifList-method" ] }, { "page": "export", "title": "export", "topics": [ "export", "export,MotifList,character,character-method", "export,MotifList,connection,character-method", "export,MotifList,missing,character-method" ] }, { "page": "geneToMotif", "title": "geneToMotif", "topics": [ "geneToMotif", "geneToMotif,MotifList-method" ] }, { "page": "MotifDb", "title": "MotifDb: An Annotated Collection of DNA-binding sequence motifs", "topics": [ "MotifDb-package", "MotifDb" ] }, { "page": "MotifList-class", "title": "MotifList", "topics": [ "class:MotifList", "MotifList-class", "show,MotifList-method" ] }, { "page": "motifToGene", "title": "motifToGene", "topics": [ "motifToGene", "motifToGene,MotifList-method" ] }, { "page": "query", "title": "query", "topics": [ "query", "query,MotifList-method" ] }, { "page": "subset", "title": "subset", "topics": [ "subset,MotifList-method" ] } ], "_rundeps": [ "abind", "askpass", "BH", "Biobase", "BiocBaseUtils", "BiocGenerics", "BiocIO", "BiocParallel", "Biostrings", "bitops", "cigarillo", "codetools", "cpp11", "crayon", "curl", "data.table", "DelayedArray", "formatR", "futile.logger", "futile.options", "generics", "GenomicAlignments", "GenomicRanges", "httr", "IRanges", "jsonlite", "lambda.r", "lattice", "Matrix", "MatrixGenerics", "matrixStats", "mime", "openssl", "R6", "RCurl", "restfulr", "Rhtslib", "rjson", "Rsamtools", "rtracklayer", "S4Arrays", "S4Vectors", "Seqinfo", "snow", "SparseArray", "splitstackshape", "SummarizedExperiment", "sys", "XML", "XVector", "yaml" ], "_vignettes": [ { "source": "MotifDb.Rmd", "filename": "MotifDb.html", "title": "MotifDb", "engine": "knitr::knitr", "headings": [ "Introduction", "Quick Start", "Beware of False Precision", "References" ], "created": "2020-04-07 17:40:05", "modified": "2020-04-14 16:54:50", "commits": 4 } ], "_score": 7.056632303190097, "_indexed": true, "_nocasepkg": "motifdb", "_universes": [ "bioc", "pshannon" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.55.0", "date": "2026-06-02T08:25:48.000Z", "distro": "noble", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "1786705c3b76a252266f07ebeb71a75da1f9350315c4998d4fef3bc5ca2d05fa", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26807477904" }, { "r": "4.6.0", "os": "linux", "version": "1.55.0", "date": "2026-06-02T08:25:27.000Z", "distro": "noble", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "22a87766a8baddb077615d3500590e708bed9fcd23ee5166d09726c831a2b2ef", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26807477904" }, { "r": "4.5.3", "os": "mac", "version": "1.55.0", "date": "2026-06-02T08:24:57.000Z", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "622a88d8ab958b596df4d7fd8c790942affd95c490bf0efa76f58b56ae11f520", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26807477904" }, { "r": "4.6.0", "os": "mac", "version": "1.55.0", "date": "2026-06-02T08:25:34.000Z", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "6ad6479b45a263cd0874231bd50fadcd72ca920b0056ef03f9d169dd4cb1e4cf", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26807477904" }, { "r": "4.6.0", "os": "wasm", "version": "1.55.0", "date": "2026-06-02T08:25:37.000Z", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "c917e06e2e69e57dee77adbb005ccc698de290ce725119b9781c5395f3ed6a50", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26807477904" }, { "r": "4.7.0", "os": "win", "version": "1.55.0", "date": "2026-06-02T08:24:37.000Z", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "c47b4ccc55633fd319cd979521eda082b19c6c4dfe189b2c617dc4d63da14c83", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26807477904" }, { "r": "4.5.3", "os": "win", "version": "1.55.0", "date": "2026-06-02T08:24:42.000Z", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "4754643de0a554c678070e916231ac5a5199c2032a7b31039e79cbb1df1f1d6c", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26807477904" }, { "r": "4.6.0", "os": "win", "version": "1.55.0", "date": "2026-06-02T08:24:24.000Z", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "696938804bb63e8fd9ca6bd2fe6b2d22bc151860ed60d42f9a0aa6b3caa6b97c", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26807477904" } ] }