{ "_id": "6a1ac1e31d7bb097a09d90a0", "Package": "MPAC", "Title": "Multi-omic Pathway Analysis of Cells", "Version": "1.7.0", "Authors@R": "c(\nperson(given=\"Peng\", family=\"Liu\",\nemail=\"pliu55.wisc+bioconductor@gmail.com\",\nrole = c(\"aut\", \"cre\"), comment=c(ORCID=\"0000-0001-5655-2259\")),\nperson(given=\"Paul\", family=\"Ahlquist\", role = c(\"aut\")),\nperson(given=\"Irene\", family=\"Ong\", role = c(\"aut\")),\nperson(given=\"Anthony\", family=\"Gitter\", role = c(\"aut\")))", "Description": "Multi-omic Pathway Analysis of Cells (MPAC), integrates\nmulti-omic data for understanding cellular mechanisms. It\npredicts novel patient groups with distinct pathway profiles as\nwell as identifying key pathway proteins with potential\nclinical associations. From CNA and RNA-seq data, it determines\ngenes’ DNA and RNA states (i.e., repressed, normal, or\nactivated), which serve as the input for PARADIGM to calculate\nInferred Pathway Levels (IPLs). It also permutes DNA and RNA\nstates to create a background distribution to filter IPLs as a\nway to remove events observed by chance. It provides multiple\nmethods for downstream analysis and visualization.", "License": "GPL-3", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.2", "URL": "https://github.com/pliu55/MPAC", "BugReports": "https://github.com/pliu55/MPAC/issues", "Config/testthat/edition": "3", "VignetteBuilder": "knitr", "biocViews": "Software, Technology, Sequencing, RNASeq, Survival,\nClustering, ImmunoOncology", "SystemsRequirements": "The `runPrd()` function requires an external\nsoftware named PARADIGM. For details, please see the 'Required\nexternal software' section in vignette's 'Run PARADIGM:\nrunPrd()'.", "Config/pak/sysreqs": "cmake libfontconfig1-dev libfreetype6-dev\nlibglpk-dev make libicu-dev libjpeg-dev libpng-dev libxml2-dev\nlibssl-dev perl zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 13:03:14 UTC", "RemoteUrl": "https://github.com/bioc/MPAC", "RemoteRef": "HEAD", "RemoteSha": "e25384ace4c3ccbc05bdf83260fd4dc38695d47f", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-30 07:31:40 UTC", "User": "root" }, "Author": "Peng Liu [aut, cre] (ORCID: ),\nPaul Ahlquist [aut],\nIrene Ong [aut],\nAnthony Gitter [aut]", "Maintainer": "Peng Liu ", "MD5sum": "0f9fe29c108fb2bf5190dd512e378cf6", "_user": "bioc", "_type": "src", "_file": "MPAC_1.7.0.tar.gz", "_fileid": "79f12bfe722cf295e6cfd4bf180d57e8ac82dc51c36755152ce0dcdb4b35caea", "_filesize": 572624, "_sha256": "79f12bfe722cf295e6cfd4bf180d57e8ac82dc51c36755152ce0dcdb4b35caea", 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