{ "_id": "6a23cdcf530b9bc726be22b0", "Package": "DWLS", "Type": "Package", "Title": "Gene Expression Deconvolution Using Dampened Weighted Least\nSquares", "Version": "0.1.0", "Authors@R": "c(person(\"Daphne\", \"Tsoucas\", email = \"dtsoucas@gmail.com\", role = \"aut\"),\nperson(\"Adriana\", \"Sistig\", email = \"adriana.sistig@icahn.mssm.edu\",\nrole = c(\"aut\",\"cre\")))", "Maintainer": "Adriana Sistig ", "Description": "The rapid development of single-cell transcriptomic\ntechnologies has helped uncover the cellular heterogeneity\nwithin cell populations. However, bulk RNA-seq continues to be\nthe main workhorse for quantifying gene expression levels due\nto technical simplicity and low cost. To most effectively\nextract information from bulk data given the new knowledge\ngained from single-cell methods, we have developed a novel\nalgorithm to estimate the cell-type composition of bulk data\nfrom a single-cell RNA-seq-derived cell-type signature.\nComparison with existing methods using various real RNA-seq\ndata sets indicates that our new approach is more accurate and\ncomprehensive than previous methods, especially for the\nestimation of rare cell types. More importantly,our method can\ndetect cell-type composition changes in response to external\nperturbations, thereby providing a valuable, cost-effective\nmethod for dissecting the cell-type-specific effects of drug\ntreatments or condition changes. As such, our method is\napplicable to a wide range of biological and clinical\ninvestigations. Dampened weighted least squares ('DWLS') is an\nestimation method for gene expression deconvolution, in which\nthe cell-type composition of a bulk RNA-seq data set is\ncomputationally inferred. This method corrects common biases\ntowards cell types that are characterized by highly expressed\ngenes and/or are highly prevalent, to provide accurate\ndetection across diverse cell types. See:\n for\nmore information about the development of 'DWLS' and the\nmethods behind our functions.", "URL": "https://github.com/sistia01/DWLS", "BugReports": "https://github.com/sistia01/DWLS/issues", "License": "GPL-2", "Encoding": "UTF-8", "Language": "en-US", "LazyData": "true", "LazyDataCompression": "xz", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.1.2", "Config/testthat/edition": "3", "Config/pak/sysreqs": "cmake libglpk-dev make libicu-dev libpng-dev\nlibuv1-dev libxml2-dev libssl-dev python3 zlib1g-dev", "Repository": "https://sistia01.r-universe.dev", "Date/Publication": "2022-05-19 13:36:10 UTC", "RemoteUrl": "https://github.com/sistia01/dwls", "RemoteRef": "HEAD", "RemoteSha": "e4c857bac7bc50bdf3373b39e8e281c3d5bc1b6a", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-06 07:25:52 UTC", "User": "root" }, "Author": "Daphne Tsoucas [aut],\nAdriana Sistig [aut, cre]", "MD5sum": "a178017add983789a7d4fdb2d94d7746", "_user": "sistia01", "_type": "src", "_file": 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