{
  "_id": "6a17d9c9acfb0bcc41d9b565",
  "Package": "SynExtend",
  "Type": "Package",
  "Title": "Tools for Comparative Genomics",
  "Version": "1.25.1",
  "Authors@R": "c(\nperson(\"Nicholas\", \"Cooley\", email = \"npc19@pitt.edu\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-6029-304X\")),\nperson(\"Aidan\", \"Lakshman\", email = \"ahl27@pitt.edu\", role = c(\"aut\", \"ctb\"), comment = c(ORCID = \"0000-0002-9465-6785\")),\nperson(\"Adelle\", \"Fernando\", email = \"Adelle.fernando@gmail.com\", role = \"ctb\"),\nperson(\"Erik\", \"Wright\", email = \"ESWRIGHT@pitt.edu\", role = \"aut\"))",
  "biocViews": "Genetics, Clustering, ComparativeGenomics, DataImport",
  "Description": "A multitude of tools for comparative genomics, focused on\nlarge-scale analyses of biological data. SynExtend includes\ntools for working with syntenic data, clustering massive\nnetwork structures, and estimating functional relationships\namong genes.",
  "License": "GPL-3",
  "ByteCompile": "true",
  "Encoding": "UTF-8",
  "NeedsCompilation": "yes",
  "VignetteBuilder": "knitr",
  "URL": "https://github.com/npcooley/SynExtend",
  "BugReports": "https://github.com/npcooley/SynExtend/issues/new/",
  "LazyLoad": "true",
  "Config/pak/sysreqs": "zlib1g-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-05-25 22:59:48 UTC",
  "RemoteUrl": "https://github.com/bioc/SynExtend",
  "RemoteRef": "HEAD",
  "RemoteSha": "ff73121bf0b617589be75b89ae0d1f1da0acd7f2",
  "Packaged": {
    "Date": "2026-05-26 07:47:59 UTC",
    "User": "root"
  },
  "Author": "Nicholas Cooley [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-6029-304X>),\nAidan Lakshman [aut, ctb] (ORCID:\n<https://orcid.org/0000-0002-9465-6785>),\nAdelle Fernando [ctb],\nErik Wright [aut]",
  "Maintainer": "Nicholas Cooley <npc19@pitt.edu>",
  "MD5sum": "f4762f0a467fec435173e3c6011cea54",
  "_user": "bioc",
  "_type": "src",
  "_file": "SynExtend_1.25.1.tar.gz",
  "_fileid": "44c1ea0d754f9cff3ee727df00239d91c16f2bbaae9d213295ad366414f18c74",
  "_filesize": 1638716,
  "_sha256": "44c1ea0d754f9cff3ee727df00239d91c16f2bbaae9d213295ad366414f18c74",
  "_created": "2026-05-26T07:47:59.000Z",
  "_published": "2026-05-28T05:59:37.962Z",
  "_jobs": [
    {
      "job": 78231958953,
      "time": 187,
      "config": "bioc-checks",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7211640267"
    },
    {
      "job": 78231959224,
      "time": 323,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7211682259"
    },
    {
      "job": 78231959154,
      "time": 401,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "NOTE",
      "artifact": "7211704800"
    },
    {
      "job": 78231959174,
      "time": 331,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7211684568"
    },
    {
      "job": 78231959203,
      "time": 396,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7211702798"
    },
    {
      "job": 78231959117,
      "time": 189,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "NOTE",
      "artifact": "7211667432"
    },
    {
      "job": 78231958865,
      "time": 414,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "ERROR",
      "artifact": "7258730436"
    },
    {
      "job": 78231958981,
      "time": 208,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "NOTE",
      "artifact": "7211681402"
    },
    {
      "job": 78231958860,
      "time": 460,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7258740085"
    },
    {
      "job": 78231958737,
      "time": 287,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7211584578"
    },
    {
      "job": 78231958790,
      "time": 139,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "FAIL",
      "artifact": ""
    },
    {
      "job": 78231958788,
      "time": 135,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "FAIL",
      "artifact": ""
    },
    {
      "job": 78231958775,
      "time": 96,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "FAIL",
      "artifact": ""
    },
    {
      "job": 78231958786,
      "time": 100,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "FAIL",
      "artifact": ""
    }
  ],
  "_bioccheck": {
    "error": 0,
    "warning": 0,
    "note": 14
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26439257734",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/bioc/SynExtend",
  "_commit": {
    "id": "ff73121bf0b617589be75b89ae0d1f1da0acd7f2",
    "author": "npcooley <npcooley@gmail.com>",
    "committer": "npcooley <npcooley@gmail.com>",
    "message": "version bumps and news\n",
    "time": 1779749988
  },
  "_maintainer": {
    "name": "Nicholas Cooley",
    "email": "npc19@pitt.edu",
    "orcid": "0000-0002-6029-304X"
  },
  "_distro": "noble",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.5.0",
      "role": "Depends"
    },
    {
      "package": "DECIPHER",
      "version": ">= 2.28.0",
      "role": "Depends"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "Biostrings",
      "role": "Imports"
    },
    {
      "package": "S4Vectors",
      "role": "Imports"
    },
    {
      "package": "IRanges",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "parallel",
      "role": "Imports"
    },
    {
      "package": "graphics",
      "role": "Imports"
    },
    {
      "package": "grDevices",
      "role": "Imports"
    },
    {
      "package": "RSQLite",
      "role": "Imports"
    },
    {
      "package": "DBI",
      "role": "Imports"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "igraph",
      "role": "Suggests"
    },
    {
      "package": "markdown",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "rtracklayer",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-22",
      "n": 2
    },
    {
      "week": "2025-31",
      "n": 4
    },
    {
      "week": "2025-42",
      "n": 1
    },
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-05",
      "n": 1
    },
    {
      "week": "2026-10",
      "n": 1
    },
    {
      "week": "2026-11",
      "n": 1
    },
    {
      "week": "2026-22",
      "n": 3
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.25.0",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.24.0",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "genetics",
    "clustering",
    "comparativegenomics",
    "dataimport",
    "fortran",
    "openmp"
  ],
  "_stars": 1,
  "_contributors": [
    {
      "user": "ahl27",
      "count": 455,
      "uuid": 30053966
    },
    {
      "user": "npcooley",
      "count": 180,
      "uuid": 39340402
    },
    {
      "user": "jwokaty",
      "count": 17,
      "uuid": 1744257
    },
    {
      "user": "nturaga",
      "count": 10,
      "uuid": 2746443
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 410,
    "source": "https://www.bioconductor.org/packages/stats/bioc/SynExtend"
  },
  "_devurl": "https://github.com/npcooley/synextend",
  "_searchresults": 87,
  "_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/readme.html",
    "extra/readme.md",
    "extra/SynExtend.html",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/npcooley/synextend",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "AAHitScoping",
    "ApproximateBackground",
    "as.simMat",
    "BlastSeqs",
    "BlockByRank",
    "CheckAgainstReport",
    "CreateDecoys",
    "dendrapply",
    "Diag",
    "Diag<-",
    "DisjointSet",
    "DPhyloStatistic",
    "EstimateExoLabel",
    "EstimRearrScen",
    "EvaluatePairs",
    "EvoWeaver",
    "ExoLabel",
    "ExtractBy",
    "FastQFromSRR",
    "FeaturesFromDF",
    "FindSets",
    "FitchParsimony",
    "FrameDownward",
    "GetTranslatedFeatures",
    "HitConsensus",
    "MakeBlastDb",
    "MoranI",
    "NormVec",
    "NucleotideOverlap",
    "OneSite",
    "PhyloDistance",
    "RandForest",
    "SequenceSimilarity",
    "simMat",
    "SpeciesTree",
    "SquaregffBy",
    "SummarizePairs",
    "SuperTree"
  ],
  "_datasets": [
    {
      "name": "BuiltInEnsembles",
      "title": "Pretrained EvoWeaver Ensemble Models",
      "object": "BuiltInEnsembles",
      "file": "BuiltInEnsembles.RData",
      "class": [
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "ExampleStreptomycesData",
      "title": "Example EvoWeaver Input Data from _Streptomyces_ Species",
      "object": "ExampleStreptomycesData",
      "file": "ExampleStreptomycesData.RData",
      "class": [
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "genecalls",
      "title": "Example genecall data",
      "object": "genecalls",
      "file": "genecalls.RData",
      "class": [
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "Generic",
      "title": "Model for predicting PID based on k-mer statistics",
      "object": "Generic",
      "file": "Generic.RData",
      "class": [
        "glm",
        "lm"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "init_pairs",
      "title": "Example genecall data",
      "object": "init_pairs",
      "file": "init_pairs.RData",
      "class": [
        "data.frame",
        "PairSummaries"
      ],
      "fields": [
        "p1",
        "p2",
        "Consensus",
        "p1featurelength",
        "p2featurelength",
        "blocksize",
        "KDist",
        "TotalMatch",
        "MaxMatch",
        "UniqueMatches",
        "Local_PID",
        "Local_Score",
        "Approx_Global_PID",
        "Approx_Global_Score",
        "Alignment",
        "Block_UID",
        "Delta_Background"
      ],
      "rows": 493,
      "table": true,
      "tojson": true
    },
    {
      "name": "linked_features",
      "title": "Example genecall data",
      "object": "linked_features",
      "file": "linked_features.RData",
      "class": [
        "LinkedPairs"
      ],
      "fields": [
        "1",
        "3",
        "4"
      ],
      "rows": 3,
      "table": false,
      "tojson": false
    },
    {
      "name": "syn",
      "title": "Example genecall data",
      "object": "syn",
      "file": "syn.RData",
      "class": [
        "Synteny"
      ],
      "fields": [
        "1",
        "3",
        "4"
      ],
      "rows": 3,
      "table": false,
      "tojson": false
    }
  ],
  "_help": [
    {
      "page": "AAHitScoping",
      "title": "Adjust the scope of kmer hits between feature and genome space.",
      "topics": [
        "AAHitScoping"
      ]
    },
    {
      "page": "ApproximateBackground",
      "title": "Return the approximate background alignment score for a series of paired sequences.",
      "topics": [
        "ApproximateBackground"
      ]
    },
    {
      "page": "BlastSeqs",
      "title": "Run BLAST queries from R",
      "topics": [
        "BlastSeqs"
      ]
    },
    {
      "page": "BlockByRank",
      "title": "Return simple summaries of blocks of candidate pairs.",
      "topics": [
        "BlockByRank"
      ]
    },
    {
      "page": "BuiltInEnsembles",
      "title": "Pretrained EvoWeaver Ensemble Models",
      "topics": [
        "BuiltInEnsembles"
      ]
    },
    {
      "page": "CheckAgainstReport",
      "title": "Pull an assembly from the NCBI FTP site.",
      "topics": [
        "CheckAgainstReport"
      ]
    },
    {
      "page": "CIDist_NullDist",
      "title": "Simulated Null Distributions for CI Distance",
      "topics": [
        "CIDist_NullDist"
      ]
    },
    {
      "page": "CreateDecoys",
      "title": "Generating Decoy Alignments for Feature Pairs",
      "topics": [
        "CreateDecoys"
      ]
    },
    {
      "page": "DecisionTree-class",
      "title": "Decision Trees for Random Forests",
      "topics": [
        "as.dendrogram.DecisionTree",
        "DecisionTree-class",
        "plot.DecisionTree"
      ]
    },
    {
      "page": "dendrapply",
      "title": "Apply a Function to All Nodes of a Dendrogram",
      "topics": [
        "dendrapply"
      ]
    },
    {
      "page": "DisjointSet",
      "title": "Return single linkage clusters from 'PairSummaries' objects.",
      "topics": [
        "DisjointSet"
      ]
    },
    {
      "page": "DPhyloStatistic",
      "title": "D-Statistic for Binary States on a Phylogeny",
      "topics": [
        "DPhyloStatistic"
      ]
    },
    {
      "page": "EstimateExoLabel",
      "title": "Estimate ExoLabel Disk Consumption",
      "topics": [
        "EstimateExoLabel"
      ]
    },
    {
      "page": "EstimRearrScen",
      "title": "Estimate Genome Rearrangement Scenarios with Double Cut and Join Operations",
      "topics": [
        "EstimateRearrangementScenarios",
        "EstimRearrScen"
      ]
    },
    {
      "page": "EvaluatePairs",
      "title": "Evaluating and Filtering Candidate Feature Pairs Against Decoy Alignments",
      "topics": [
        "EvaluatePairs"
      ]
    },
    {
      "page": "EvoWeaver",
      "title": "EvoWeaver: Identifying Gene Functional Associations from Coevolutionary Signals",
      "topics": [
        "EvoWeaver",
        "EvoWeaver-class",
        "EvoWeaver-utils",
        "SpeciesTree",
        "SpeciesTree.EvoWeaver"
      ]
    },
    {
      "page": "EvoWeaver-GOPreds",
      "title": "Gene Organization Predictions for EvoWeaver",
      "topics": [
        "EvoWeaver-GOPreds",
        "GeneDistance.EvoWeaver",
        "MoransI.EvoWeaver",
        "OrientationMI.EvoWeaver"
      ]
    },
    {
      "page": "EvoWeaver-PPPreds",
      "title": "Phylogenetic Profiling Predictions for EvoWeaver",
      "topics": [
        "Behdenna.EvoWeaver",
        "CorrGL.EvoWeaver",
        "EvoWeaver-PPPreds",
        "ExtantJaccard.EvoWeaver",
        "GLDistance.EvoWeaver",
        "GLMI.EvoWeaver",
        "Hamming.EvoWeaver",
        "PAJaccard.EvoWeaver",
        "PAOverlap.EvoWeaver",
        "ProfDCA.EvoWeaver"
      ]
    },
    {
      "page": "EvoWeaver-PSPreds",
      "title": "Phylogenetic Structure Predictions for EvoWeaver",
      "topics": [
        "EvoWeaver-PSPreds",
        "RPContextTree.EvoWeaver",
        "RPMirrorTree.EvoWeaver",
        "TreeDistance.EvoWeaver"
      ]
    },
    {
      "page": "EvoWeaver-SLPreds",
      "title": "Sequence Level Predictions for EvoWeaver",
      "topics": [
        "Ancestral.EvoWeaver",
        "EvoWeaver-SLPreds",
        "GeneVector.EvoWeaver",
        "SequenceInfo.EvoWeaver"
      ]
    },
    {
      "page": "EvoWeb",
      "title": "EvoWeb: Predictions from EvoWeaver",
      "topics": [
        "EvoWeb"
      ]
    },
    {
      "page": "ExampleStreptomycesData",
      "title": "Example EvoWeaver Input Data from _Streptomyces_ Species",
      "topics": [
        "ExampleStreptomycesData"
      ]
    },
    {
      "page": "ExoLabel",
      "title": "ExoLabel: Out-of-Memory Fast Label Propagation",
      "topics": [
        "ExoLabel"
      ]
    },
    {
      "page": "ExtractBy",
      "title": "Extract and organize 'DNAStringSets's.",
      "topics": [
        "ExtractBy"
      ]
    },
    {
      "page": "FastQFromSRR",
      "title": "Get Sequencing Data from the SRA",
      "topics": [
        "FastQFromSRR"
      ]
    },
    {
      "page": "FeaturesFromDF",
      "title": "Return a DNAStringSet of features",
      "topics": [
        "FeaturesFromDF"
      ]
    },
    {
      "page": "FindSets",
      "title": "Find all single linkage clusters in an undirected pairs list.",
      "topics": [
        "FindSets"
      ]
    },
    {
      "page": "FitchParsimony",
      "title": "Calculate ancestral states using Fitch Parsimony",
      "topics": [
        "FitchParsimony"
      ]
    },
    {
      "page": "FrameDownward",
      "title": "Adjust a DataFrame of genecalls",
      "topics": [
        "FrameDownward"
      ]
    },
    {
      "page": "genecalls",
      "title": "Example genecall data",
      "topics": [
        "genecalls"
      ]
    },
    {
      "page": "Generic",
      "title": "Model for predicting PID based on k-mer statistics",
      "topics": [
        "Generic"
      ]
    },
    {
      "page": "GetTranslatedFeatures",
      "title": "Translate Nucleotide Features to Amino Acid Sequences",
      "topics": [
        "GetTranslatedFeatures"
      ]
    },
    {
      "page": "HitConsensus",
      "title": "Return a numeric measure of whether kmer hits linking two genomic features are in linearly similar locations in both features.",
      "topics": [
        "HitConsensus"
      ]
    },
    {
      "page": "init_pairs",
      "title": "Example genecall data",
      "topics": [
        "init_pairs"
      ]
    },
    {
      "page": "linked_features",
      "title": "Example genecall data",
      "topics": [
        "linked_features"
      ]
    },
    {
      "page": "LinkedPairs-class",
      "title": "Tables of where syntenic hits link pairs of genes",
      "topics": [
        "LinkedPairs-class",
        "print.LinkedPairs",
        "[.LinkedPairs"
      ]
    },
    {
      "page": "MakeBlastDb",
      "title": "Create a BLAST Database from R",
      "topics": [
        "MakeBlastDb"
      ]
    },
    {
      "page": "MoransI",
      "title": "Moran's _I_ Spatial Autocorrelation Index",
      "topics": [
        "MoranI"
      ]
    },
    {
      "page": "NormVec",
      "title": "Unit normalize a vector",
      "topics": [
        "NormVec"
      ]
    },
    {
      "page": "NucleotideOverlap",
      "title": "Tabulating Features Linked by Syntenic Hits",
      "topics": [
        "NucleotideOverlap"
      ]
    },
    {
      "page": "OneSite",
      "title": "Calculate a site on a right hyperbola.",
      "topics": [
        "OneSite"
      ]
    },
    {
      "page": "PhyloDistance",
      "title": "Calculate Distance between Unrooted Phylogenies",
      "topics": [
        "PhyloDistance"
      ]
    },
    {
      "page": "PhyloDistance-CI",
      "title": "Clustering Information Distance",
      "topics": [
        "CIDist",
        "PhyloDistance-CI"
      ]
    },
    {
      "page": "PhyloDistance-JRF",
      "title": "Jaccard-Robinson-Foulds Distance and Nye Similarity",
      "topics": [
        "JRFDist",
        "PhyloDistance-JRF"
      ]
    },
    {
      "page": "PhyloDistance-KF",
      "title": "Kuhner-Felsenstein Distance",
      "topics": [
        "KFDist",
        "PhyloDistance-KF"
      ]
    },
    {
      "page": "PhyloDistance-RF",
      "title": "Robinson-Foulds Distance",
      "topics": [
        "PhyloDistance-RF",
        "RFDist"
      ]
    },
    {
      "page": "plot.EvoWeb",
      "title": "Plot predictions in a EvoWeb object",
      "topics": [
        "plot.EvoWeb"
      ]
    },
    {
      "page": "predict.EvoWeaver",
      "title": "Make predictions with EvoWeaver objects",
      "topics": [
        "predict.EvoWeaver"
      ]
    },
    {
      "page": "RandForest",
      "title": "Classification and Regression with Random Forests",
      "topics": [
        "predict.RandForest",
        "RandForest",
        "RandForest.fit"
      ]
    },
    {
      "page": "SequenceSimilarity",
      "title": "Return a numeric value that represents the similarity between two aligned sequences as determined by a provided subsitution matrix.",
      "topics": [
        "SequenceSimilarity"
      ]
    },
    {
      "page": "simMat",
      "title": "Similarity Matrices",
      "topics": [
        "as.data.frame.simMat",
        "as.matrix.simMat",
        "as.simMat",
        "as.simMat.matrix",
        "as.simMat.vector",
        "Diag",
        "Diag.simMat",
        "Diag<-",
        "Diag<-.simMat",
        "print.simMat",
        "simMat",
        "simMat-class"
      ]
    },
    {
      "page": "SquaregffBy",
      "title": "Convert a GRanges object to a DataFrame",
      "topics": [
        "SquaregffBy"
      ]
    },
    {
      "page": "subset-dendrogram",
      "title": "Subsetting dendrogram objects",
      "topics": [
        "subset.dendrogram"
      ]
    },
    {
      "page": "SummarizePairs",
      "title": "Summarizing Linked Feature Pairs from a LinkedPairs Object",
      "topics": [
        "SummarizePairs"
      ]
    },
    {
      "page": "SuperTree",
      "title": "Create a Species Tree from Gene Trees",
      "topics": [
        "SuperTree"
      ]
    },
    {
      "page": "SuperTreeEx",
      "title": "Example Dendrograms",
      "topics": [
        "SuperTreeEx"
      ]
    },
    {
      "page": "syn",
      "title": "Example genecall data",
      "topics": [
        "syn"
      ]
    },
    {
      "page": "ToFeatureSpace",
      "title": "Tabulating Features Linked by Syntenic Hits",
      "topics": [
        "ToFeatureSpace"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/SynExtend/raw/HEAD/README.md",
  "_rundeps": [
    "BiocGenerics",
    "Biostrings",
    "bit",
    "bit64",
    "blob",
    "cachem",
    "cli",
    "cpp11",
    "crayon",
    "DBI",
    "DECIPHER",
    "fastmap",
    "generics",
    "glue",
    "IRanges",
    "lifecycle",
    "memoise",
    "pkgconfig",
    "rlang",
    "RSQLite",
    "S4Vectors",
    "Seqinfo",
    "vctrs",
    "XVector"
  ],
  "_sysdeps": [
    {
      "shlib": "libgfortran",
      "package": "libgfortran5",
      "source": "gcc",
      "version": "14.2.0-4ubuntu2~24.04.1",
      "name": "fortran",
      "homepage": "http://gcc.gnu.org/",
      "description": "Runtime library for GNU Fortran applications"
    },
    {
      "shlib": "libgomp",
      "package": "libgomp1",
      "source": "gcc",
      "version": "14.2.0-4ubuntu2~24.04.1",
      "name": "openmp",
      "homepage": "http://gcc.gnu.org/",
      "description": "GCC OpenMP (GOMP) support library"
    }
  ],
  "_vignettes": [
    {
      "source": "UsingSynExtend.Rmd",
      "filename": "UsingSynExtend.html",
      "title": "Using SynExtend",
      "author": "Nicholas Cooley",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Package Structure",
        "Installation",
        "Usage"
      ],
      "created": "2020-02-13 19:07:20",
      "modified": "2026-05-25 22:54:53",
      "commits": 26
    }
  ],
  "_score": 6.018700498666243,
  "_indexed": true,
  "_nocasepkg": "synextend",
  "_universes": [
    "bioc",
    "npcooley"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.25.1",
      "date": "2026-05-26T07:51:00.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "ff73121bf0b617589be75b89ae0d1f1da0acd7f2",
      "fileid": "c5c95f30a6c981a3c117f8556205dc3904e775993b39e0a55e906e3eecb11277",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26439257734"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.25.1",
      "date": "2026-05-26T07:51:43.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "ff73121bf0b617589be75b89ae0d1f1da0acd7f2",
      "fileid": "511d689c4386580697496bf5f464e201ee3bfd74285cd9f4eca134a66b543c19",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26439257734"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.25.1",
      "date": "2026-05-26T07:51:10.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "ff73121bf0b617589be75b89ae0d1f1da0acd7f2",
      "fileid": "341b65fbfd92a0ee505cceb328c1d079ef5f0f1a43379a11acc08865f89fbab8",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26439257734"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.25.1",
      "date": "2026-05-26T07:51:49.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "ff73121bf0b617589be75b89ae0d1f1da0acd7f2",
      "fileid": "482fb03ba7196f32b4527e8a199c1dd3685158fa6c08197211ec257d26ddaceb",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26439257734"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.25.1",
      "date": "2026-05-26T07:51:15.000Z",
      "arch": "aarch64",
      "commit": "ff73121bf0b617589be75b89ae0d1f1da0acd7f2",
      "fileid": "5b49fbdefe8d1fce3afe8cc15bd5c55e77d926de32f70a0769ad01c51651f982",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26439257734"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.25.1",
      "date": "2026-05-28T05:55:06.000Z",
      "arch": "x86_64",
      "commit": "ff73121bf0b617589be75b89ae0d1f1da0acd7f2",
      "fileid": "5fc3c06e29226e7f7c5525ca274b4e44f99dcb06bf9a1034cd311332e9a18f7a",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26439257734"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.25.1",
      "date": "2026-05-26T07:51:47.000Z",
      "arch": "aarch64",
      "commit": "ff73121bf0b617589be75b89ae0d1f1da0acd7f2",
      "fileid": "5b11101e0de0d711b0fabdf654a51bbd759c4159818c99dc5f90c7aa8f95e251",
      "status": "success",
      "check": "NOTE",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26439257734"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.25.1",
      "date": "2026-05-28T05:54:38.000Z",
      "arch": "x86_64",
      "commit": "ff73121bf0b617589be75b89ae0d1f1da0acd7f2",
      "fileid": "54b4068ad663a0e3303e8284c2b4c1dc6374559e0c945a849fdb66d7f184453f",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/26439257734"
    }
  ]
}