{ "_id": "6a3aa3d344e65c5976a7fb8c", "Package": "vsn", "Version": "3.81.0", "Title": "Variance stabilization and calibration for microarray data", "Authors@R": "c(\nperson(\"Wolfgang\", \"Huber\", email=\"wolfgang.huber@embl.org\", role = c(\"aut\",\"cre\")),\nperson(\"Anja\", \"von Heydebreck\", role = c(\"aut\")),\nperson(\"Dennis\", \"Kostka\", role = c(\"ctb\")),\nperson(\"David\", \"Kreil\", role = c(\"ctb\")),\nperson(\"Hans-Ulrich\", \"Klein\", role = c(\"ctb\")),\nperson(\"Robert\", \"Gentleman\", role = c(\"ctb\")),\nperson(\"Deepayan\", \"Sarkar\", role = c(\"ctb\")),\nperson(\"Gordon\", \"Smyth\", role = c(\"ctb\")),\nperson(\"Federal Ministry of Research, Technology and Space of Germany, DHGP\", role=\"fnd\"))", "Maintainer": "Wolfgang Huber ", "Description": "The package implements a method for normalising microarray\nintensities from single- and multiple-color arrays. It can also\nbe used for data from other technologies, as long as they have\nsimilar format. The method uses a robust variant of the\nmaximum-likelihood estimator for an additive-multiplicative\nerror model and affine calibration. The model incorporates data\ncalibration step (a.k.a. normalization), a model for the\ndependence of the variance on the mean intensity and a variance\nstabilizing data transformation. Differences between\ntransformed intensities are analogous to \"normalized\nlog-ratios\". However, in contrast to the latter, their variance\nis independent of the mean, and they are usually more sensitive\nand specific in detecting differential transcription.", "Reference": "[1] Variance stabilization applied to microarray data\ncalibration and to the quantification of differential\nexpression, Wolfgang Huber, Anja von Heydebreck, Holger\nSueltmann, Annemarie Poustka, Martin Vingron; Bioinformatics\n(2002) 18 Suppl1 S96-S104. [2] Parameter estimation for the\ncalibration and variance stabilization of microarray data,\nWolfgang Huber, Anja von Heydebreck, Holger Sueltmann,\nAnnemarie Poustka, and Martin Vingron; Statistical Applications\nin Genetics and Molecular Biology (2003) Vol. 2 No. 1, Article\n3; http://www.bepress.com/sagmb/vol2/iss1/art3.", "License": "Artistic-2.0", "URL": "https://github.com/Huber-group-EMBL/vsn", "BugReports": "https://github.com/Huber-group-EMBL/vsn/issues", "biocViews": "Microarray, OneChannel, TwoChannel, Preprocessing", "VignetteBuilder": "knitr", "Collate": "AllClasses.R AllGenerics.R vsn2.R vsnLogLik.R justvsn.R\nmethods-vsnInput.R methods-vsn.R methods-vsn2.R\nmethods-predict.R RGList_to_NChannelSet.R meanSdPlot-methods.R\nplotLikelihood.R normalize.AffyBatch.vsn.R sagmbSimulateData.R\nzzz.R", "RoxygenNote": "7.3.3", "Config/pak/sysreqs": "zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:30:04 UTC", "RemoteUrl": 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