{ "_id": "6a196e58acfb0bcc41deb976", "Package": "FRASER", "Type": "Package", "Title": "Find RAre Splicing Events in RNA-Seq Data", "Version": "2.8.0", "Date": "2026-02-10", "Authors@R": "c(\nperson(\"Christian\", \"Mertes\", role=c(\"aut\", \"cre\"),\nemail=\"mertes@in.tum.de\", comment=c(ORCID=\"0000-0002-1091-205X\")),\nperson(\"Ines\", \"Scheller\", role=c(\"aut\"), email=\"scheller@in.tum.de\",\ncomment=c(ORCID=\"0000-0003-4533-7857\")),\nperson(\"Karoline\", \"Lutz\", role=c(\"ctb\"), email=\"lutzk@in.tum.de\"),\nperson(\"Ata\", \"Jadid Ahari\", role=c(\"ctb\"),\ncomment=c(ORCID=\"0009-0004-1577-7733\")),\nperson(\"Vicente\", \"Yepez\", role=c(\"aut\"), email=\"yepez@in.tum.de\",\ncomment=c(ORCID=\"0000-0001-7916-3643\")),\nperson(\"Julien\", \"Gagneur\", role=c(\"aut\"), email=\"gagneur@in.tum.de\",\ncomment=c(ORCID=\"0000-0002-8924-8365\")))", "Description": "Detection of rare aberrant splicing events in\ntranscriptome profiles. Read count ratio expectations are\nmodeled by an autoencoder to control for confounding factors in\nthe data. Given these expectations, the ratios are assumed to\nfollow a beta-binomial distribution with a junction specific\ndispersion. Outlier events are then identified as read-count\nratios that deviate significantly from this distribution.\nFRASER is able to detect alternative splicing, but also intron\nretention. The package aims to support diagnostics in the field\nof rare diseases where RNA-seq is performed to identify\naberrant splicing defects.", "biocViews": "RNASeq, AlternativeSplicing, Sequencing, Software, Genetics,\nCoverage", "License": "file LICENSE", "URL": "https://github.com/gagneurlab/FRASER", "BugReports": "https://github.com/gagneurlab/FRASER/issues", "RoxygenNote": "7.3.3", "Encoding": "UTF-8", "VignetteBuilder": "knitr", "Collate": "variables.R getNSetterFuns.R FRASER-package.R\nFraserDataSet-class.R AllGenerics-definitions.R AllGenerics.R\nFraser-pipeline.R annotationOfRanges.R beta-binomial-testing.R\ncalculatePSIValue.R countRNAseqData.R example_functions.R\nfilterExpression.R find_encoding_dimensions.R getURLs.R\nhelper-functions.R mergeExternalData.R saveHDF5Objects.R\nRcppExports.R autoencoder.R updateD.R updateE.R updateRho.R\npvalsNzscore.R makeSimulatedDataset.R fitCorrectionMethods.R\nplotMethods.R resultAnnotations.R zzz.R", "Config/pak/sysreqs": "cmake make libmagick++-dev gsfonts libbz2-dev\nlibicu-dev liblzma-dev libpng-dev libuv1-dev libxml2-dev\nlibssl-dev xz-utils zlib1g-dev", "Repository": "https://bioc-release.r-universe.dev", "Date/Publication": "2026-04-28 12:52:34 UTC", "RemoteUrl": "https://github.com/bioc/FRASER", "RemoteRef": "RELEASE_3_23", "RemoteSha": "9e4f63a424045b1cabc76ab1f9b6b8cc9620286b", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-05-29 08:25:09 UTC", "User": "root" }, "Author": "Christian Mertes [aut, cre] (ORCID:\n),\nInes Scheller [aut] (ORCID: ),\nKaroline Lutz [ctb],\nAta Jadid Ahari [ctb] (ORCID: ),\nVicente Yepez [aut] (ORCID: ),\nJulien Gagneur [aut] (ORCID: )", "Maintainer": "Christian Mertes ", "MD5sum": "e713e4e16f82195b7c7c00b970665d99", "_user": "bioc-release", "_type": "src", "_file": "FRASER_2.8.0.tar.gz", "_fileid": "0445fc46178943fa72acbc32dbc7ff5bc9413423506cc990b8cd1e373c3d80dd", "_filesize": 3038351, "_sha256": "0445fc46178943fa72acbc32dbc7ff5bc9413423506cc990b8cd1e373c3d80dd", 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