{
  "_id": "6ae77a451e2c7b3a4f53061c",
  "Package": "ternarynet",
  "Version": "1.57.0",
  "Date": "2024-02-19",
  "Title": "Ternary Network Estimation",
  "Description": "Gene-regulatory network (GRN) modeling seeks to infer\ndependencies between genes and thereby provide insight into the\nregulatory relationships that exist within a cell. This package\nprovides a computational Bayesian approach to GRN estimation\nfrom perturbation experiments using a ternary network model, in\nwhich gene expression is discretized into one of 3 states: up,\nunchanged, or down). The ternarynet package includes a parallel\nimplementation of the replica exchange Monte Carlo algorithm\nfor fitting network models, using MPI.",
  "Author": "Matthew N. McCall <mccallm@gmail.com>, Anthony Almudevar\n<Anthony_Alumudevar@urmc.rochester.edu>, David Burton\n<David_Burton@urmc.rochester.edu>, Harry Stern\n<harry.stern@rochester.edu>",
  "Authors@R": "c(\nperson(\"McCall\",\"Matthew\",\nemail=\"mccallm@gmail.com\",\nrole=c(\"aut\",\"cre\")),\nperson(\"Almudevar\",\"Anthony\",\nemail=\"Anthony_Almudevar@urmc.rochester.edu\",\nrole=c(\"aut\")),\nperson(\"Burton\",\"David\",\nemail=\"David_Burton@urmc.rochester.edu\",\nrole=c(\"aut\")),\nperson(\"Stern\",\"Harry\",\nemail=\"harry.stern@rochester.edu\",\nrole=c(\"aut\")))",
  "License": "GPL (>= 2)",
  "biocViews": "Software, CellBiology, GraphAndNetwork, Network, Bayesian",
  "git_url": "https://git.bioconductor.org/packages/ternarynet",
  "git_branch": "master",
  "git_last_commit": "6fb06d2",
  "git_last_commit_date": "2020-10-27",
  "NeedsCompilation": "yes",
  "Packaged": {
    "Date": "2026-11-01 14:24:39 UTC",
    "User": "root"
  },
  "Maintainer": "McCall N. Matthew <mccallm@gmail.com>",
  "Config/pak/sysreqs": "libglpk-dev libxml2-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:36:17 UTC",
  "RemoteUrl": "https://github.com/bioc/ternarynet",
  "RemoteRef": "HEAD",
  "RemoteSha": "c84a1185e793ec2495d4297942639bfb184b9612",
  "_user": "bioc",
  "_type": "src",
  "_file": "ternarynet_1.57.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/0c13b59045a4aeb5646b564a6c37f90f0517b5a181ac1288c19c800541feeaab",
  "_filesize": 290894,
  "_sha256": "0c13b59045a4aeb5646b564a6c37f90f0517b5a181ac1288c19c800541feeaab",
  "_expires": "2027-02-09T17:43:31.000Z",
  "_created": "2026-11-01T14:24:39.000Z",
  "_published": "2026-11-01T17:43:32.968Z",
  "_upstream": "https://github.com/bioc/ternarynet",
  "_status": "success",
  "_maintainer": {
    "name": "McCall N. Matthew",
    "email": "mccallm@gmail.com",
    "login": "mccallm",
    "description": "",
    "uuid": 3731477
  },
  "_jobs": [
    {
      "job": 124876317534,
      "time": 126,
      "config": "bioc-checks",
      "r": "4.6.2",
      "check": "WARNING",
      "artifact": "13087732377"
    },
    {
      "job": 124876317600,
      "time": 118,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "13087831322"
    },
    {
      "job": 124876317557,
      "time": 199,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "13088021358"
    },
    {
      "job": 124876317560,
      "time": 154,
      "config": "linux-release-arm64",
      "r": "4.6.2",
      "check": "OK",
      "artifact": "13086968843"
    },
    {
      "job": 124876317568,
      "time": 233,
      "config": "linux-release-x86_64",
      "r": "4.6.2",
      "check": "OK",
      "artifact": "13087980839"
    },
    {
      "job": 124876317572,
      "time": 136,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "13093723484"
    },
    {
      "job": 124876317672,
      "time": 224,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "13092584588"
    },
    {
      "job": 124876317535,
      "time": 125,
      "config": "macos-release-arm64",
      "r": "4.6.2",
      "check": "OK",
      "artifact": "13094161213"
    },
    {
      "job": 124876317579,
      "time": 316,
      "config": "macos-release-x86_64",
      "r": "4.6.2",
      "check": "OK",
      "artifact": "13093211947"
    },
    {
      "job": 124869927621,
      "time": 213,
      "config": "source",
      "r": "4.6.2",
      "check": "OK",
      "artifact": "13087397302"
    },
    {
      "job": 124876317550,
      "time": 111,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "13088115777"
    },
    {
      "job": 124876317716,
      "time": 203,
      "config": "windows-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "13087840745"
    },
    {
      "job": 124876317655,
      "time": 159,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "13086729898"
    },
    {
      "job": 124876317678,
      "time": 132,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "13087123538"
    },
    {
      "job": 124876317674,
      "time": 229,
      "config": "windows-release-arm64",
      "r": "4.6.2",
      "check": "OK",
      "artifact": "13086834055"
    },
    {
      "job": 124876317695,
      "time": 120,
      "config": "windows-release-x86_64",
      "r": "4.6.2",
      "check": "OK",
      "artifact": "13087785903"
    }
  ],
  "_bioccheck": {
    "error": 0,
    "warning": 2,
    "note": 10
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720",
  "_commit": {
    "id": "c84a1185e793ec2495d4297942639bfb184b9612",
    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n",
    "time": 1777379777
  },
  "_distro": "resolute",
  "_host": "GitHub-Actions",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.0",
      "role": "Depends"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "igraph",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "graphics",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "BiocParallel",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "Rmpi",
      "role": "Enhances"
    },
    {
      "package": "snow",
      "role": "Enhances"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.57.0",
      "bioc": "3.24",
      "repository": "bioc"
    },
    {
      "branch": "release",
      "version": "1.56.0",
      "bioc": "3.23",
      "repository": "bioc"
    }
  ],
  "_topics": [
    "software",
    "cellbiology",
    "graphandnetwork",
    "network",
    "bayesian",
    "cpp"
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 482,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 534,
    "source": "https://www.bioconductor.org/packages/stats/bioc/ternarynet"
  },
  "_searchresults": 5,
  "_abi": {
    "exports": [
      {
        "key": "ternarynet::generic:backupStage",
        "hash": "c746c89fe24f3a5d"
      },
      {
        "key": "ternarynet::generic:backupStage<-",
        "hash": "6efce716c27d8911"
      },
      {
        "key": "ternarynet::generic:beta0",
        "hash": "d3caa74adcabf54c"
      },
      {
        "key": "ternarynet::generic:beta0<-",
        "hash": "5520f815f08c4a0b"
      },
      {
        "key": "ternarynet::generic:chi0",
        "hash": "b9f4556a41c7b4f6"
      },
      {
        "key": "ternarynet::generic:chi0<-",
        "hash": "4145c1b6cdf019ff"
      },
      {
        "key": "ternarynet::generic:degreeObjMin",
        "hash": "4ef54ad96a8978d3"
      },
      {
        "key": "ternarynet::generic:degreeObjMin<-",
        "hash": "34fad889892bac56"
      },
      {
        "key": "ternarynet::generic:degreeObjs",
        "hash": "0be0e677d49c5e51"
      },
      {
        "key": "ternarynet::generic:degreeObjs<-",
        "hash": "8dc721057fe89ffa"
      },
      {
        "key": "ternarynet::generic:delta",
        "hash": "39b3931e1449ef29"
      },
      {
        "key": "ternarynet::generic:delta<-",
        "hash": "5f82190e1cb28080"
      },
      {
        "key": "ternarynet::generic:edgePenalty",
        "hash": "b373d99e9c2f71a1"
      },
      {
        "key": "ternarynet::generic:edgePenalty<-",
        "hash": "15c63054457ee8ea"
      },
      {
        "key": "ternarynet::generic:epsilon",
        "hash": "3bb3a81c21b24c01"
      },
      {
        "key": "ternarynet::generic:epsilon<-",
        "hash": "8e04a68e0ec5080b"
      },
      {
        "key": "ternarynet::generic:experimentNames",
        "hash": "b0b5a1955ad74ce2"
      },
      {
        "key": "ternarynet::generic:experimentNames<-",
        "hash": "6ead3632d8cc39eb"
      },
      {
        "key": "ternarynet::generic:finalTemperature",
        "hash": "871b4549ce92556e"
      },
      {
        "key": "ternarynet::generic:finalTemperature<-",
        "hash": "7a45af54f69b42f4"
      },
      {
        "key": "ternarynet::generic:geneNames",
        "hash": "890636762ab238bf"
      },
      {
        "key": "ternarynet::generic:geneNames<-",
        "hash": "3f4e8596a4d8c237"
      },
      {
        "key": "ternarynet::generic:graphObjMin",
        "hash": "91f3aac36fb2aab4"
      },
      {
        "key": "ternarynet::generic:graphObjMin<-",
        "hash": "91ca531dead344d5"
      },
      {
        "key": "ternarynet::generic:graphObjs",
        "hash": "df8deff0f3cdaa75"
      },
      {
        "key": "ternarynet::generic:graphObjs<-",
        "hash": "2f64635f217f2b5b"
      },
      {
        "key": "ternarynet::generic:inputParams",
        "hash": "ef681ee637ee0a40"
      },
      {
        "key": "ternarynet::generic:inputParams<-",
        "hash": "0960da0cd42d6507"
      },
      {
        "key": "ternarynet::generic:m0",
        "hash": "604b6217b4c15c7a"
      },
      {
        "key": "ternarynet::generic:m0<-",
        "hash": "82b76ff7d2804fb5"
      },
      {
        "key": "ternarynet::generic:maxDegree",
        "hash": "d23da62efa41380b"
      },
      {
        "key": "ternarynet::generic:maxDegree<-",
        "hash": "b55cf7c5a48b5fc6"
      },
      {
        "key": "ternarynet::generic:maxStage",
        "hash": "d2b10a0f9ce2f08f"
      },
      {
        "key": "ternarynet::generic:maxStage<-",
        "hash": "0b5af6368f5b0078"
      },
      {
        "key": "ternarynet::generic:maxTransition",
        "hash": "63b42dd8f1b5de21"
      },
      {
        "key": "ternarynet::generic:maxTransition<-",
        "hash": "47ecddb07e2900ec"
      },
      {
        "key": "ternarynet::generic:minScore",
        "hash": "cb3aa5ba9e85dbea"
      },
      {
        "key": "ternarynet::generic:minScore<-",
        "hash": "444821558dd2d01c"
      },
      {
        "key": "ternarynet::generic:ne",
        "hash": "f81020d62842d13a"
      },
      {
        "key": "ternarynet::generic:ne<-",
        "hash": "80645bc20a3dc2ad"
      },
      {
        "key": "ternarynet::generic:neighborDegree",
        "hash": "29f33773c6f6c959"
      },
      {
        "key": "ternarynet::generic:neighborDegree<-",
        "hash": "6cbfcf406173329c"
      },
      {
        "key": "ternarynet::generic:newScore",
        "hash": "b922aa58007a1894"
      },
      {
        "key": "ternarynet::generic:newScore<-",
        "hash": "b3a8d164b53fe52a"
      },
      {
        "key": "ternarynet::generic:pAddParent",
        "hash": "6ac1f57eac8f52bd"
      },
      {
        "key": "ternarynet::generic:pAddParent<-",
        "hash": "747990121efaba49"
      },
      {
        "key": "ternarynet::generic:pExchangeParent",
        "hash": "f2ec42bc613d3ba9"
      },
      {
        "key": "ternarynet::generic:pExchangeParent<-",
        "hash": "90d7c396ffe12751"
      },
      {
        "key": "ternarynet::generic:pNeighborhood",
        "hash": "4590b15bd498ab47"
      },
      {
        "key": "ternarynet::generic:pNeighborhood<-",
        "hash": "8e867cead7ab7da7"
      },
      {
        "key": "ternarynet::generic:perturbationObj",
        "hash": "b9323d854d696624"
      },
      {
        "key": "ternarynet::generic:perturbationObj<-",
        "hash": "9a98b7ba74f4cdf1"
      },
      {
        "key": "ternarynet::generic:perturbationType",
        "hash": "813649aba2726668"
      },
      {
        "key": "ternarynet::generic:perturbationType<-",
        "hash": "4ae9b2355ae533cd"
      },
      {
        "key": "ternarynet::generic:rho",
        "hash": "899f3e8dd105cc24"
      },
      {
        "key": "ternarynet::generic:rho<-",
        "hash": "e421540898658038"
      },
      {
        "key": "ternarynet::generic:scoreType",
        "hash": "1418ba2d5f58bdfe"
      },
      {
        "key": "ternarynet::generic:scoreType<-",
        "hash": "6842fdb4b91fe5ac"
      },
      {
        "key": "ternarynet::generic:scores",
        "hash": "bb5f7c4413673efe"
      },
      {
        "key": "ternarynet::generic:scores<-",
        "hash": "efcd7cb8913d0ad0"
      },
      {
        "key": "ternarynet::generic:stageCount",
        "hash": "7ab51c7b172d2fd3"
      },
      {
        "key": "ternarynet::generic:stageCount<-",
        "hash": "94e82e2e0a150ef4"
      },
      {
        "key": "ternarynet::generic:steadyStateObj",
        "hash": "2f9e10a284ca4bf4"
      },
      {
        "key": "ternarynet::generic:steadyStateObj<-",
        "hash": "96a88965d0e8afb5"
      },
      {
        "key": "ternarynet::generic:tableObjMin",
        "hash": "93a5e2a8edf16784"
      },
      {
        "key": "ternarynet::generic:tableObjMin<-",
        "hash": "c39991f8acc035f2"
      },
      {
        "key": "ternarynet::generic:tableObjs",
        "hash": "5f1f2be5c6c51ad5"
      },
      {
        "key": "ternarynet::generic:tableObjs<-",
        "hash": "64b630ec25440477"
      },
      {
        "key": "ternarynet::generic:traces",
        "hash": "29016acdd60ec3d4"
      },
      {
        "key": "ternarynet::generic:traces<-",
        "hash": "b321bf9c95060fb7"
      },
      {
        "key": "ternarynet::generic:xSeed",
        "hash": "0d30a63ac8c98649"
      },
      {
        "key": "ternarynet::generic:xSeed<-",
        "hash": "85952b0bed87e22d"
      },
      {
        "key": "ternarynet::ternaryFit",
        "hash": "c115e48d37275b59"
      },
      {
        "key": "ternarynet::ternaryFitParameters",
        "hash": "0631313619808542"
      },
      {
        "key": "ternarynet::ternaryPost",
        "hash": "d0465234782c2461"
      }
    ],
    "imports": []
  },
  "_rbuild": "4.6.2",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/manual.pdf",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/ternarynet.html"
  ],
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "attractorSummary",
    "backupStage",
    "backupStage<-",
    "beta0",
    "beta0<-",
    "chi0",
    "chi0<-",
    "degreeObjMin",
    "degreeObjMin<-",
    "degreeObjs",
    "degreeObjs<-",
    "delta",
    "delta<-",
    "edgePenalty",
    "edgePenalty<-",
    "epsilon",
    "epsilon<-",
    "experimentNames",
    "experimentNames<-",
    "finalTemperature",
    "finalTemperature<-",
    "geneNames",
    "geneNames<-",
    "graphObjMin",
    "graphObjMin<-",
    "graphObjs",
    "graphObjs<-",
    "graphPosterior",
    "inputParams",
    "inputParams<-",
    "m0",
    "m0<-",
    "maxDegree",
    "maxDegree<-",
    "maxStage",
    "maxStage<-",
    "maxTransition",
    "maxTransition<-",
    "minScore",
    "minScore<-",
    "ne",
    "ne<-",
    "neighborDegree",
    "neighborDegree<-",
    "newScore",
    "newScore<-",
    "pAddParent",
    "pAddParent<-",
    "parallelFit",
    "perturbationObj",
    "perturbationObj<-",
    "perturbationType",
    "perturbationType<-",
    "pExchangeParent",
    "pExchangeParent<-",
    "plotFit",
    "plotPost",
    "plotTraces",
    "pNeighborhood",
    "pNeighborhood<-",
    "predictAttractor",
    "rho",
    "rho<-",
    "scores",
    "scores<-",
    "scoreType",
    "scoreType<-",
    "simulateSteadyState",
    "stageCount",
    "stageCount<-",
    "steadyStateObj",
    "steadyStateObj<-",
    "tableObjMin",
    "tableObjMin<-",
    "tableObjs",
    "tableObjs<-",
    "ternaryFit",
    "ternaryFitParameters",
    "ternaryPost",
    "tnetfit",
    "tnetpost",
    "traces",
    "traces<-",
    "xSeed",
    "xSeed<-"
  ],
  "_help": [
    {
      "page": "attractorSummary",
      "title": "Summarize Attractors",
      "topics": [
        "attractorSummary"
      ]
    },
    {
      "page": "graphPosterior",
      "title": "Network Topology",
      "topics": [
        "graphPosterior"
      ]
    },
    {
      "page": "parallelFit",
      "title": "Fit ternary network models using parallel tempering",
      "topics": [
        "parallelFit"
      ]
    },
    {
      "page": "plotFit",
      "title": "Network Fit Plot",
      "topics": [
        "plotFit"
      ]
    },
    {
      "page": "plotPost",
      "title": "Network Posterior Plot",
      "topics": [
        "plotPost"
      ]
    },
    {
      "page": "plotTraces",
      "title": "Network Fit Traces",
      "topics": [
        "plotTraces"
      ]
    },
    {
      "page": "predictAttractor",
      "title": "Predict the attractor(s) resulting from a given perturbation",
      "topics": [
        "predictAttractor"
      ]
    },
    {
      "page": "simulateSteadyState",
      "title": "Simulate Steady State Data",
      "topics": [
        "simulateSteadyState"
      ]
    },
    {
      "page": "ternaryFit-class",
      "title": "Ternary Network Fit",
      "topics": [
        "class:ternaryFit",
        "degreeObjMin",
        "degreeObjMin,ternaryFit-method",
        "degreeObjMin<-",
        "degreeObjMin<-,ternaryFit-method",
        "dim,ternaryFit-method",
        "experimentNames",
        "experimentNames,ternaryFit-method",
        "experimentNames<-",
        "experimentNames<-,ternaryFit-method",
        "finalTemperature",
        "finalTemperature,ternaryFit-method",
        "finalTemperature<-",
        "finalTemperature<-,ternaryFit-method",
        "geneNames",
        "geneNames,ternaryFit-method",
        "geneNames<-",
        "geneNames<-,ternaryFit-method",
        "graphObjMin",
        "graphObjMin,ternaryFit-method",
        "graphObjMin<-",
        "graphObjMin<-,ternaryFit-method",
        "initialize,ternaryFit-method",
        "inputParams",
        "inputParams,ternaryFit-method",
        "inputParams<-",
        "inputParams<-,ternaryFit-method",
        "minScore",
        "minScore,ternaryFit-method",
        "minScore<-",
        "minScore<-,ternaryFit-method",
        "newScore",
        "newScore,ternaryFit-method",
        "newScore<-",
        "newScore<-,ternaryFit-method",
        "perturbationObj",
        "perturbationObj,ternaryFit-method",
        "perturbationObj<-",
        "perturbationObj<-,ternaryFit-method",
        "show,ternaryFit-method",
        "stageCount",
        "stageCount,ternaryFit-method",
        "stageCount<-",
        "stageCount<-,ternaryFit-method",
        "steadyStateObj",
        "steadyStateObj,ternaryFit-method",
        "steadyStateObj<-",
        "steadyStateObj<-,ternaryFit-method",
        "tableObjMin",
        "tableObjMin,ternaryFit-method",
        "tableObjMin<-",
        "tableObjMin<-,ternaryFit-method",
        "ternaryFit",
        "ternaryFit-class",
        "ternaryFit-methods",
        "traces",
        "traces,ternaryFit-method",
        "traces<-",
        "traces<-,ternaryFit-method",
        "xSeed",
        "xSeed,ternaryFit-method",
        "xSeed<-",
        "xSeed<-,ternaryFit-method"
      ]
    },
    {
      "page": "ternaryFitParameters-class",
      "title": "Ternary Network Fitting Parameters",
      "topics": [
        "backupStage",
        "backupStage,ternaryFitParameters-method",
        "backupStage<-",
        "backupStage<-,ternaryFitParameters-method",
        "beta0",
        "beta0,ternaryFitParameters-method",
        "beta0<-",
        "beta0<-,ternaryFitParameters-method",
        "chi0",
        "chi0,ternaryFitParameters-method",
        "chi0<-",
        "chi0<-,ternaryFitParameters-method",
        "class:ternaryFitParameters",
        "delta",
        "delta,ternaryFitParameters-method",
        "delta<-",
        "delta<-,ternaryFitParameters-method",
        "edgePenalty",
        "edgePenalty,ternaryFitParameters-method",
        "edgePenalty<-",
        "edgePenalty<-,ternaryFitParameters-method",
        "epsilon",
        "epsilon,ternaryFitParameters-method",
        "epsilon<-",
        "epsilon<-,ternaryFitParameters-method",
        "initialize,ternaryFitParameters-method",
        "m0",
        "m0,ternaryFitParameters-method",
        "m0<-",
        "m0<-,ternaryFitParameters-method",
        "maxDegree",
        "maxDegree,ternaryFitParameters-method",
        "maxDegree<-",
        "maxDegree<-,ternaryFitParameters-method",
        "maxStage",
        "maxStage,ternaryFitParameters-method",
        "maxStage<-",
        "maxStage<-,ternaryFitParameters-method",
        "maxTransition",
        "maxTransition,ternaryFitParameters-method",
        "maxTransition<-",
        "maxTransition<-,ternaryFitParameters-method",
        "ne",
        "ne,ternaryFitParameters-method",
        "ne<-",
        "ne<-,ternaryFitParameters-method",
        "neighborDegree",
        "neighborDegree,ternaryFitParameters-method",
        "neighborDegree<-",
        "neighborDegree<-,ternaryFitParameters-method",
        "pAddParent",
        "pAddParent,ternaryFitParameters-method",
        "pAddParent<-",
        "pAddParent<-,ternaryFitParameters-method",
        "perturbationType",
        "perturbationType,ternaryFitParameters-method",
        "perturbationType<-",
        "perturbationType<-,ternaryFitParameters-method",
        "pExchangeParent",
        "pExchangeParent,ternaryFitParameters-method",
        "pExchangeParent<-",
        "pExchangeParent<-,ternaryFitParameters-method",
        "pNeighborhood",
        "pNeighborhood,ternaryFitParameters-method",
        "pNeighborhood<-",
        "pNeighborhood<-,ternaryFitParameters-method",
        "rho",
        "rho,ternaryFitParameters-method",
        "rho<-",
        "rho<-,ternaryFitParameters-method",
        "scoreType",
        "scoreType,ternaryFitParameters-method",
        "scoreType<-",
        "scoreType<-,ternaryFitParameters-method",
        "show,ternaryFitParameters-method",
        "ternaryFitParameters",
        "ternaryFitParameters-class",
        "ternaryFitParameters-methods"
      ]
    },
    {
      "page": "ternaryPost-class",
      "title": "Ternary Network Posterior",
      "topics": [
        "class:ternaryPost",
        "degreeObjs",
        "degreeObjs,ternaryPost-method",
        "degreeObjs<-",
        "degreeObjs<-,ternaryPost-method",
        "dim,ternaryPost-method",
        "experimentNames,ternaryPost-method",
        "experimentNames<-,ternaryPost-method",
        "geneNames,ternaryPost-method",
        "geneNames<-,ternaryPost-method",
        "graphObjs",
        "graphObjs,ternaryPost-method",
        "graphObjs<-",
        "graphObjs<-,ternaryPost-method",
        "initialize,ternaryPost-method",
        "inputParams,ternaryPost-method",
        "inputParams<-,ternaryPost-method",
        "perturbationObj,ternaryPost-method",
        "perturbationObj<-,ternaryPost-method",
        "scores",
        "scores,ternaryPost-method",
        "scores<-",
        "scores<-,ternaryPost-method",
        "show,ternaryPost-method",
        "steadyStateObj,ternaryPost-method",
        "steadyStateObj<-,ternaryPost-method",
        "tableObjs",
        "tableObjs,ternaryPost-method",
        "tableObjs<-",
        "tableObjs<-,ternaryPost-method",
        "ternaryPost",
        "ternaryPost-class",
        "ternaryPost-methods"
      ]
    },
    {
      "page": "tnetfit",
      "title": "Ternary Network Fitting",
      "topics": [
        "tnetfit"
      ]
    },
    {
      "page": "tnetpost",
      "title": "Ternary Network Posterior Sampling",
      "topics": [
        "tnetpost"
      ]
    }
  ],
  "_rundeps": [
    "BH",
    "BiocParallel",
    "cli",
    "codetools",
    "cpp11",
    "formatR",
    "futile.logger",
    "futile.options",
    "glue",
    "igraph",
    "lambda.r",
    "lattice",
    "lifecycle",
    "magrittr",
    "Matrix",
    "pkgconfig",
    "rlang",
    "snow",
    "vctrs"
  ],
  "_sysdeps": [
    {
      "shlib": "libstdc++",
      "package": "libstdc++6",
      "source": "gcc",
      "version": "16-20260322-1ubuntu1",
      "name": "c++",
      "homepage": "http://gcc.gnu.org/",
      "description": "GNU Standard C++ Library v3"
    }
  ],
  "_vignettes": [
    {
      "source": "ternarynet.Rnw",
      "filename": "ternarynet.pdf",
      "title": "ternarynet: A Computational Bayesian Approach to Ternary Network Estimation",
      "engine": "utils::Sweave",
      "headings": [
        "Introduction",
        "Getting Started",
        "Session Info"
      ],
      "created": "2013-11-01 20:23:40",
      "modified": "2021-04-15 18:13:14",
      "commits": 4
    }
  ],
  "_score": 3.3010299956639813,
  "_indexed": true,
  "_nocasepkg": "ternarynet",
  "_universes": [
    "bioc",
    "mccallm"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.57.0",
      "date": "2026-11-01T14:26:52.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/5df8c16b9cf63a7441d3b3fd1f95a6a675a7f2434da1c7530eee651e8ac6f1a5",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.57.0",
      "date": "2026-11-01T14:40:32.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/f0f7f62c01f72806d410bc172ff000fc8a2d562b6d0344406b8d0f01c9df9936",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.6.2",
      "os": "linux",
      "version": "1.57.0",
      "date": "2026-11-01T14:27:25.000Z",
      "distro": "resolute",
      "arch": "aarch64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/a5160ad61a269d1128409a9f52f73c56c0195e1bd35a2eb3de5e802aba3e27db",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.6.2",
      "os": "linux",
      "version": "1.57.0",
      "date": "2026-11-01T14:41:03.000Z",
      "distro": "resolute",
      "arch": "x86_64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/48cc64872c27253ee9910679677600bcf0fd82d19494fb7a8b16f5d1c974c83d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.57.0",
      "date": "2026-11-01T17:37:07.000Z",
      "arch": "aarch64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/76611ed10d3064366f2e3e6e33e3cbba9de487137fd54e26761da0c7b3533014",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.57.0",
      "date": "2026-11-01T17:25:36.000Z",
      "arch": "x86_64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/dfff5bf1502a1ae2e2bb48e7603cafdd126093e591cdd4a9480b19bd593ba283",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.6.2",
      "os": "mac",
      "version": "1.57.0",
      "date": "2026-11-01T17:36:38.000Z",
      "arch": "aarch64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/39111fb19a56d277399361fcb73d7c0619d360c73f2af469ce19c79a471283de",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.6.2",
      "os": "mac",
      "version": "1.57.0",
      "date": "2026-11-01T17:25:54.000Z",
      "arch": "x86_64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/4af11e9564497f11cbf76af8e65affcb92e86fe44bf1be90788910508f307a4a",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.57.0",
      "date": "2026-11-01T14:39:29.000Z",
      "arch": "emscripten",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/62e084bc8eb6a9f99d599003d22a61781c6cdea5a3ce58a23c7ebdcc3057d2c7",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.57.0",
      "date": "2026-11-01T14:27:52.000Z",
      "arch": "aarch64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/3041cb2065e4525df03f9f4174c94f236125cb18e9674fbd0d39336700fd6a02",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.57.0",
      "date": "2026-11-01T14:27:16.000Z",
      "arch": "x86_64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/35c026637d64b84e4bbc8b2fe48df9d472331ab4adf6960f5bc4944578fab829",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.57.0",
      "date": "2026-11-01T14:27:22.000Z",
      "arch": "x86_64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/dcfa3ced73c0cc7d943636a1c5f5f63bc9465f3a7ee30e545ef0ca94ebf9179d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.6.2",
      "os": "win",
      "version": "1.57.0",
      "date": "2026-11-01T14:28:14.000Z",
      "arch": "aarch64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/05455601527bbc288319f6a3d12721faf1c55ab2a01104c26adcb597bfcaf8a2",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    },
    {
      "r": "4.6.2",
      "os": "win",
      "version": "1.57.0",
      "date": "2026-11-01T14:27:17.000Z",
      "arch": "x86_64",
      "commit": "c84a1185e793ec2495d4297942639bfb184b9612",
      "fileid": "https://r2.ropensci.org/2540e94700f984aa23711eac3ef68ccf026f751a33fcf3d8d330293ae3acad77",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310899720"
    }
  ]
}