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Starting from gene expression data, functions in this\npackage identify sample-specific gene signatures and use them\nto build a graph of samples. In this graph samples are joined\nby edges if they have a similar expression profile, according\nto a pre-computed similarity matrix. The similarity between the\nexpression profiles of two samples is computed using a method\nsimilar to GSEA. The graph of samples can then be used to\nperform community clustering or to perform supervised\nclassification of samples in a testing set.", "License": "GPL-3", "Encoding": "UTF-8", "URL": "https://github.com/Matteo-Ciciani/scudo", "BugReports": "https://github.com/Matteo-Ciciani/scudo/issues", "Collate": "'class.R' 'accessors.R' 'packageDoc.R' 'utilities.R'\n'scudoClassifyUtilities.R' 'scudoClassify.R' 'scudoTrain.R'\n'scudoCytoscape.R' 'scudoModel.R' 'scudoNetwork.R'\n'scudoPlot.R' 'scudoTest.R' 'show.R'", "RoxygenNote": "6.1.1", "VignetteBuilder": "knitr", "biocViews": "GeneExpression, DifferentialExpression,\nBiomedicalInformatics, Classification, Clustering,\nGraphAndNetwork, Network, Proteomics, Transcriptomics,\nSystemsBiology, FeatureExtraction", "Config/pak/sysreqs": "libglpk-dev libicu-dev libxml2-dev zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:49:16 UTC", "RemoteUrl": "https://github.com/bioc/rScudo", "RemoteRef": "HEAD", 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