{ "_id": "6abcdb1999f7aa8c6aa4d067", "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": "2026-09-30 09:19:53 UTC", "User": "root" }, "_user": "bioc", "_type": "src", "_file": "MotifDb_1.55.0.tar.gz", "_fileid": "https://r2.ropensci.org/b25a2451615f8ef21d10ccfb089b1159524b80fda55d7a81bd404ed3470acbbe", "_filesize": 4569950, "_sha256": "b25a2451615f8ef21d10ccfb089b1159524b80fda55d7a81bd404ed3470acbbe", "_expires": "2027-01-08T09:49:10.000Z", "_created": "2026-09-30T09:19:53.000Z", "_published": "2026-09-30T09:49:13.378Z", "_bioccheck": { "error": 2, "warning": 2, "note": 11 }, "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/bioc/actions/runs/36694993975", "_status": "success", "_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": "resolute", "_jobs": [ { "job": 109822374611, "time": 201, "config": "bioc-checks", "r": "4.6.1", "check": "ERROR", "artifact": "11087068065" }, { "job": 109822374784, "time": 374, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "11088062395" }, { "job": 109822374818, "time": 377, "config": "linux-release-x86_64", "r": "4.6.1", "check": "WARNING", "artifact": "11087053614" }, { "job": 109822374865, "time": 174, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "WARNING", "artifact": "11089465971" }, { "job": 109822374802, "time": 224, "config": "macos-release-arm64", "r": "4.6.1", "check": "WARNING", "artifact": "11088512874" }, { "job": 109820827776, "time": 263, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "11087801784" }, { "job": 109822374844, "time": 147, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "11088091458" }, { "job": 109822374896, "time": 267, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "11087643490" }, { "job": 109822374820, "time": 247, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "WARNING", "artifact": "11087482336" }, { "job": 109822374822, "time": 258, "config": "windows-release-x86_64", "r": "4.6.1", "check": "WARNING", "artifact": "11088256416" } ], "_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", "followers": 470, "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 1372, "source": "https://www.bioconductor.org/packages/stats/bioc/MotifDb" }, "_mentions": 17, "_searchresults": 1, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/manual.pdf", "extra/MotifDb.html", "extra/NEWS.html", "extra/NEWS.txt", "LICENSE" ], "_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": [ "askpass", "BH", "BiocBaseUtils", "BiocGenerics", "BiocIO", "BiocParallel", "Biostrings", "bitops", "cigarillo", "codetools", "cpp11", "crayon", "curl", "data.table", "formatR", "futile.logger", "futile.options", "generics", "GenomicAlignments", "GenomicRanges", "httr", "IRanges", "jsonlite", "lambda.r", "mime", "openssl", "R6", "RCurl", "restfulr", "Rhtslib", "rjson", "Rsamtools", "rtracklayer", "S4Vectors", "Seqinfo", "snow", "splitstackshape", "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": 5.39262661647404, "_indexed": true, "_nocasepkg": "motifdb", "_universes": [ "bioc", "pshannon" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.55.0", "date": "2026-09-30T09:24:18.000Z", "distro": "resolute", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "https://r2.ropensci.org/a856d36eeb9ce1fe2e82cc865f9af2501214d636ff322cdf8f737ee1af404a12", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/36694993975" }, { "r": "4.6.1", "os": "linux", "version": "1.55.0", "date": "2026-09-30T09:23:48.000Z", "distro": "resolute", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "https://r2.ropensci.org/0d5499de2d3e5c0f6a3c76ecbd22f722bcbfb8c58a4448a60a1e92165c07a08c", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/36694993975" }, { "r": "4.5.3", "os": "mac", "version": "1.55.0", "date": "2026-09-30T09:47:00.000Z", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "https://r2.ropensci.org/97305b8162730342f730fe3b7facd35e58fc90f7c2b927f992ed7155a3765468", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/36694993975" }, { "r": "4.6.1", "os": "mac", "version": "1.55.0", "date": "2026-09-30T09:45:48.000Z", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "https://r2.ropensci.org/9f5b114bfc59533de3753f7f52c42f4cd6ead61de4a86ed7cad75967d50d8ae1", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/36694993975" }, { "r": "4.6.0", "os": "wasm", "version": "1.55.0", "date": "2026-09-30T09:22:59.000Z", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "https://r2.ropensci.org/37e094c2bd1a1c310407027f34ebb02f22b60bffa87a3b22fc6e806b553ce4f3", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/36694993975" }, { "r": "4.7.0", "os": "win", "version": "1.55.0", "date": "2026-09-30T09:21:45.000Z", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "https://r2.ropensci.org/8b568f603a267469f790e9400820adc412cd9885b45e27f3edade2297a6dbb1c", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/36694993975" }, { "r": "4.5.3", "os": "win", "version": "1.55.0", "date": "2026-09-30T09:21:36.000Z", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "https://r2.ropensci.org/8c202337cfab9148fef03a16ed7c95d763a5e3e27b5d2eef3f9cd632d1c6cc83", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/36694993975" }, { "r": "4.6.1", "os": "win", "version": "1.55.0", "date": "2026-09-30T09:21:47.000Z", "commit": "b859f52857979a7035bf507388a0a6f98e104747", "fileid": "https://r2.ropensci.org/4971bd79ee5b058b82315f4d7ef6132047c934e2a6b6da39d22cca5c7a86178e", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/36694993975" } ] }