{
  "_id": "6a27af4124555f66ed5350c8",
  "Package": "pastboon",
  "Type": "Package",
  "Title": "Simulation of Parameterized Stochastic Boolean Networks",
  "Version": "0.1.4",
  "Description": "A Boolean network is a particular kind of discrete\ndynamical system where the variables are simple binary\nswitches. Despite its simplicity, Boolean network modeling has\nbeen a successful method to describe the behavioral pattern of\nvarious phenomena. Applying stochastic noise to Boolean\nnetworks is a useful approach for representing the effects of\nvarious perturbing stimuli on complex systems. A number of\nmethods have been developed to control noise effects on Boolean\nnetworks using parameters integrated into the update rules.\nThis package provides functions to examine three such methods:\nBoolean network with perturbations (BNp), described by\nTrairatphisan et al. (2013) <doi:10.1186/1478-811X-11-46>,\nstochastic discrete dynamical systems (SDDS), proposed by\nMurrugarra et al. (2012) <doi:10.1186/1687-4153-2012-5>, and\nBoolean network with probabilistic edge weights (PEW),\npresented by Deritei et al. (2022)\n<doi:10.1371/journal.pcbi.1010536>. This package includes\nsource code derived from the 'BoolNet' package, which is\nlicensed under the Artistic License 2.0.",
  "Authors@R": "c(person(\"Mohammad\", \"Taheri-Ledari\", role = c(\"aut\", \"cre\",\"cph\"), email = \"mo.taheri@ut.ac.ir\", comment = c(ORCID = \"0009-0007-9132-077X\")),\nperson(\"Kaveh\", \"Kavousi\", role = \"ctb\", email = \"kkavousi@ut.ac.ir\", comment = c(ORCID = \"0000-0002-1906-3912\")),\nperson(\"Sayed-Amir\", \"Marashi\", role = \"ctb\", email = \"marashi@ut.ac.ir\", comment = c(ORCID = \"0000-0001-9801-7449\")),\nperson(given = \"Authors of BoolNet\", role = \"ctb\", comment = \"Original authors of the BoolNet package\"),\nperson(c(\"Troy\", \"D.\"), \"Hanson\", role = \"ctb\", comment=\"Contributed uthash macros\"))",
  "Author": "Mohammad Taheri-Ledari [aut, cre, cph]\n(<https://orcid.org/0009-0007-9132-077X>), Kaveh Kavousi [ctb]\n(<https://orcid.org/0000-0002-1906-3912>), Sayed-Amir Marashi\n[ctb] (<https://orcid.org/0000-0001-9801-7449>), Authors of\nBoolNet [ctb] (Original authors of the BoolNet package), Troy\nD. Hanson [ctb] (Contributed uthash macros)",
  "Maintainer": "Mohammad Taheri-Ledari <mo.taheri@ut.ac.ir>",
  "License": "Artistic-2.0",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "NeedsCompilation": "yes",
  "BugReports": "https://github.com/taherimo/pastboon/issues",
  "Repository": "https://taherimo.r-universe.dev",
  "Date/Publication": "2026-02-08 16:52:44 UTC",
  "RemoteUrl": "https://github.com/taherimo/pastboon",
  "RemoteRef": "HEAD",
  "RemoteSha": "032ab90b02e72f0079729abac856d2cd77d08478",
  "Packaged": {
    "Date": "2026-06-08 07:55:27 UTC",
    "User": "root"
  },
  "MD5sum": "de4f2bb934ce87099bc469f1c51710f6",
  "_user": "taherimo",
  "_type": "src",
  "_file": "pastboon_0.1.4.tar.gz",
  "_fileid": "715061478abf270b5f6d11d8bf1dc9aa0a6b6d3b5f8d5984d46dbac64c2aebbb",
  "_filesize": 173422,
  "_sha256": "715061478abf270b5f6d11d8bf1dc9aa0a6b6d3b5f8d5984d46dbac64c2aebbb",
  "_created": "2026-06-08T07:55:27.000Z",
  "_published": "2026-06-09T06:14:25.671Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 80256772808,
      "time": 104,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7474441854"
    },
    {
      "job": 80256772873,
      "time": 104,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7474441094"
    },
    {
      "job": 80256772979,
      "time": 106,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7474442405"
    },
    {
      "job": 80256772874,
      "time": 100,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7474439892"
    },
    {
      "job": 80256772543,
      "time": 79,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7499729533"
    },
    {
      "job": 80256772806,
      "time": 219,
      "config": "macos-oldrel-x86_64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7474469342"
    },
    {
      "job": 80256772517,
      "time": 126,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7499633620"
    },
    {
      "job": 80256772555,
      "time": 305,
      "config": "macos-release-x86_64",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7499862447"
    },
    {
      "job": 80256772560,
      "time": 181,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7474407317"
    },
    {
      "job": 80256772826,
      "time": 85,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7474435471"
    },
    {
      "job": 80256772699,
      "time": 97,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "7474438366"
    },
    {
      "job": 80256772815,
      "time": 83,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "7474434393"
    },
    {
      "job": 80256772504,
      "time": 75,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "WARNING",
      "artifact": "7499509691"
    }
  ],
  "_buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/taherimo/pastboon",
  "_commit": {
    "id": "032ab90b02e72f0079729abac856d2cd77d08478",
    "author": "taherimo <63298038+taherimo@users.noreply.github.com>",
    "committer": "taherimo <63298038+taherimo@users.noreply.github.com>",
    "message": "Update BNp_simulation.c\n",
    "time": 1770569564
  },
  "_maintainer": {
    "name": "Mohammad Taheri-Ledari",
    "email": "mo.taheri@ut.ac.ir",
    "login": "taherimo",
    "description": "",
    "uuid": 63298038
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.5.0",
      "role": "Depends"
    },
    {
      "package": "BoolNet",
      "role": "Suggests"
    }
  ],
  "_owner": "taherimo",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2026-06",
      "n": 4
    }
  ],
  "_tags": [],
  "_stars": 0,
  "_contributors": [
    {
      "user": "taherimo",
      "count": 110,
      "uuid": 63298038
    }
  ],
  "_userbio": {
    "uuid": 63298038,
    "type": "user",
    "name": "taherimo"
  },
  "_downloads": {
    "count": 114,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/pastboon"
  },
  "_devurl": "https://github.com/taherimo/pastboon",
  "_searchresults": 0,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/pastboon.html",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/taherimo/pastboon",
  "_realowner": "taherimo",
  "_cranurl": true,
  "_releases": [
    {
      "version": "0.1.0",
      "date": "2024-07-23"
    },
    {
      "version": "0.1.1",
      "date": "2024-08-18"
    },
    {
      "version": "0.1.2",
      "date": "2024-08-22"
    },
    {
      "version": "0.1.3",
      "date": "2025-01-08"
    },
    {
      "version": "0.1.4",
      "date": "2025-01-24"
    }
  ],
  "_exports": [
    "calc_convergence_time",
    "calc_node_activities",
    "calc_pairwise_reach",
    "count_pairwise_trans",
    "extract_edges",
    "get_reached_states"
  ],
  "_datasets": [
    {
      "name": "lac_operon_net",
      "title": "The lactose operon Boolean network",
      "object": "lac_operon_net",
      "class": [
        "BooleanNetwork"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "myeloid_diff_net",
      "title": "The myeloid differentiation Boolean network",
      "object": "myeloid_diff_net",
      "class": [
        "BooleanNetwork"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    }
  ],
  "_help": [
    {
      "page": "pastboon-package",
      "title": "Simulation of Parameterized Stochastic Boolean Networks",
      "topics": [
        "pastboon-package",
        "pastboon"
      ]
    },
    {
      "page": "calc_convergence_time",
      "title": "Calculate convergence time-step for node activities",
      "topics": [
        "calc_convergence_time"
      ]
    },
    {
      "page": "calc_node_activities",
      "title": "Calculate activity rate for each node",
      "topics": [
        "calc_node_activities"
      ]
    },
    {
      "page": "calc_pairwise_reach",
      "title": "Calculate pairwise reachability between a given set of states",
      "topics": [
        "calc_pairwise_reach"
      ]
    },
    {
      "page": "count_pairwise_trans",
      "title": "Count pairwise transitions between a given set of states",
      "topics": [
        "count_pairwise_trans"
      ]
    },
    {
      "page": "extract_edges",
      "title": "Extract edges from a Boolean network",
      "topics": [
        "extract_edges"
      ]
    },
    {
      "page": "get_reached_states",
      "title": "Obtain the reached states",
      "topics": [
        "get_reached_states"
      ]
    },
    {
      "page": "lac_operon_net",
      "title": "The lactose operon Boolean network",
      "topics": [
        "lac_operon_net"
      ]
    },
    {
      "page": "myeloid_diff_net",
      "title": "The myeloid differentiation Boolean network",
      "topics": [
        "myeloid_diff_net"
      ]
    }
  ],
  "_rundeps": [],
  "_score": 2,
  "_indexed": true,
  "_nocasepkg": "pastboon",
  "_universes": [
    "taherimo"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.1.4",
      "date": "2026-06-08T07:58:10.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "032ab90b02e72f0079729abac856d2cd77d08478",
      "fileid": "539a06e0af928ae1f947b345e1a31538659cfdf276f953a37455f6f8b0b6da8f",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.1.4",
      "date": "2026-06-08T07:58:05.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "032ab90b02e72f0079729abac856d2cd77d08478",
      "fileid": "2ad8673e2e227fa62ea041f3af2bd8facae3b55035fa7d0d02727b2a8697eb7e",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "0.1.4",
      "date": "2026-06-08T07:58:12.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "032ab90b02e72f0079729abac856d2cd77d08478",
      "fileid": "5c500619df8f54968885f3a33d98aca3e11f801aa30aca41bf5af985d12fe07d",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "0.1.4",
      "date": "2026-06-08T07:58:02.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "032ab90b02e72f0079729abac856d2cd77d08478",
      "fileid": "34377b118b3bff2a81aae796902400ce4ef405878df22ad13f989fa4e0a00f3a",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.1.4",
      "date": "2026-06-09T06:05:16.000Z",
      "arch": "aarch64",
      "commit": "032ab90b02e72f0079729abac856d2cd77d08478",
      "fileid": "555e31a44aec06cbf48ba72f00387660383111114dd2f724e86f8b3ee6c6b8ec",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.1.4",
      "date": "2026-06-08T07:59:30.000Z",
      "arch": "x86_64",
      "commit": "032ab90b02e72f0079729abac856d2cd77d08478",
      "fileid": "e0324707b000286a32be042e30fb4fcc0366a959cdd1c6ab86b4122c576ed117",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "0.1.4",
      "date": "2026-06-09T05:58:39.000Z",
      "arch": "aarch64",
      "commit": "032ab90b02e72f0079729abac856d2cd77d08478",
      "fileid": "be01ad7b74f100e19b32eff3c93cde88f7b4c3510675744add586e2478e22339",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "0.1.4",
      "date": "2026-06-09T06:13:34.000Z",
      "arch": "x86_64",
      "commit": "032ab90b02e72f0079729abac856d2cd77d08478",
      "fileid": "c91eb8e601eee2342be30821f1d7c079d6f171a6685d7836bbf4b5a6cabef935",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.1.4",
      "date": "2026-06-08T07:57:56.000Z",
      "arch": "emscripten",
      "commit": "032ab90b02e72f0079729abac856d2cd77d08478",
      "fileid": "a89978b7ce9ae8134934bed6dc280171602c3b746c9374467a56d9f78fc405a7",
      "status": "success",
      "buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.1.4",
      "date": "2026-06-08T07:57:43.000Z",
      "arch": "x86_64",
      "commit": "032ab90b02e72f0079729abac856d2cd77d08478",
      "fileid": "abcf497a0eafb542f82d725e82e4a4b2294d557d21ffc6426021aecc3d6aeef0",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.1.4",
      "date": "2026-06-08T07:57:36.000Z",
      "arch": "x86_64",
      "commit": "032ab90b02e72f0079729abac856d2cd77d08478",
      "fileid": "fdb8784dc5a41799b2fb2910bbe7a47a7a98b7a3210933bd3613c2e57a915cc8",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "0.1.4",
      "date": "2026-06-09T05:49:18.000Z",
      "arch": "x86_64",
      "commit": "032ab90b02e72f0079729abac856d2cd77d08478",
      "fileid": "672edcf38dd4b1508b5884208c408d23c22495a126b5090b3332e087bf5e3468",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/taherimo/actions/runs/27123624623"
    }
  ]
}