{ "_id": "6a1f36d5b401979e73428a17", "Package": "OSNMTF", "Type": "Package", "Title": "Orthogonal Sparse Non-Negative Matrix Tri-Factorization", "Version": "0.1.0", "Author": "Xiaoyao Yin", "Maintainer": "Xiaoyao Yin ", "Description": "A novel method to implement cancer subtyping and subtype\nspecific drug targets identification via non-negative matrix\ntri-factorization. To improve the interpretability, we\nintroduce orthogonal constraint to the row coefficient matrix\nand column coefficient matrix. To meet the prior knowledge that\neach subtype should be strongly associated with few gene sets,\nwe introduce sparsity constraint to the association sub-matrix.\nThe average residue was introduced to evaluate the row and\ncolumn cluster numbers. This is part of the work \"Liver Cancer\nAnalysis via Orthogonal Sparse Non-Negative Matrix Tri-\nFactorization\" which will be submitted to BBRC.", "License": "GPL (>= 2)", "Encoding": "UTF-8", "RoxygenNote": "6.0.1", "VignetteBuilder": "knitr", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-15 06:10:11 UTC", "User": "root" }, "Repository": "https://yinxy1992.r-universe.dev", "Date/Publication": "2019-11-28 12:50:02 UTC", "RemoteUrl": "https://github.com/cran/OSNMTF", "RemoteRef": "HEAD", "RemoteSha": "e4821f5a3ab385780af747ce31ed4204dfc22448", "MD5sum": "1be13c558e6678cd62bb6e7c88051a5b", "_user": "yinxy1992", "_type": "src", "_file": "OSNMTF_0.1.0.tar.gz", "_fileid": "e85e6fd666525bc047d40cf19ec4408748cfb42d5c9b263ba95c42df4600e105", "_filesize": 427515, "_sha256": "e85e6fd666525bc047d40cf19ec4408748cfb42d5c9b263ba95c42df4600e105", "_created": "2026-05-15T06:10:11.000Z", "_published": "2026-06-02T20:02:29.217Z", "_distro": "noble", "_jobs": [ { "job": 79160730718, "time": 123, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7011203693" }, { "job": 79160730963, "time": 115, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7011201419" }, { "job": 79160731212, "time": 177, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7011226887" }, { "job": 79160730597, "time": 167, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7011225596" }, { "job": 79160729871, "time": 172, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7011178045" }, { "job": 79160730142, "time": 132, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7368470460" }, { "job": 79160731138, "time": 93, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7011196592" }, { "job": 79160731763, "time": 67, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7011191885" }, { "job": 79160731617, "time": 73, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7011192803" } ], "_buildurl": "https://github.com/r-universe/yinxy1992/actions/runs/25903215287", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cran/OSNMTF", "_commit": { "id": "e4821f5a3ab385780af747ce31ed4204dfc22448", "author": "Xiaoyao Yin ", "committer": "cran-robot ", "message": "version 0.1.0\n", "time": 1574945402 }, "_maintainer": { "name": "Xiaoyao Yin", "email": "yinxy1992@sina.com", "login": "yinxy1992", "uuid": 9562170 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.4.4", "role": "Depends" }, { "package": "dplyr", "role": "Imports" }, { "package": "MASS", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "cran", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 0, "_contributors": [ { "user": "yinxy1992", "count": 1, "uuid": 9562170 } ], "_userbio": { "uuid": 9562170, "type": "user", "name": "yinxy1992" }, "_downloads": { "count": 169, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/OSNMTF" }, "_searchresults": 2, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/OSNMTF.html", "manual.pdf" ], "_realowner": "yinxy1992", "_cranurl": false, "_releases": [ { "version": "0.1.0", "date": "2019-11-28" } ], "_exports": [ "affinityMatrix", "ASR", "cost", "dist2eu", "initialization", "MSR", "OSNMTF", "simu_data_generation", "Standard_Normalization", "update_B", "update_C", "update_L", "update_R" ], "_help": [ { "page": "affinityMatrix", "title": "Calculate the similarity matrix", "topics": [ "affinityMatrix" ] }, { "page": "ASR", "title": "Average Residue", "topics": [ "ASR" ] }, { "page": "cost", "title": "Calculate the cost", "topics": [ "cost" ] }, { "page": "dist2eu", "title": "Euclidean Distance", "topics": [ "dist2eu" ] }, { "page": "initialization", "title": "initialize the values used in NMTFOSC", "topics": [ "initialization" ] }, { "page": "MSR", "title": "Mean Residue", "topics": [ "MSR" ] }, { "page": "OSNMTF", "title": "The algorithm OSNMTF", "topics": [ "OSNMTF" ] }, { "page": "simu_data_generation", "title": "Generate simulation data", "topics": [ "simu_data_generation" ] }, { "page": "Standard_Normalization", "title": "Standard Normalization", "topics": [ "Standard_Normalization" ] }, { "page": "update_B", "title": "Update sub-matrix B", "topics": [ "update_B" ] }, { "page": "update_C", "title": "Update sub-matrix C", "topics": [ "update_C" ] }, { "page": "update_L", "title": "Update sub-matrix L", "topics": [ "update_L" ] }, { "page": "update_R", "title": "Update sub-matrix R", "topics": [ "update_R" ] } ], "_rundeps": [ "cli", "dplyr", "generics", "glue", "lifecycle", "magrittr", "MASS", "pillar", "pkgconfig", "R6", "rlang", "tibble", "tidyselect", "utf8", "vctrs", "withr" ], "_vignettes": [ { "source": "introduction.Rmd", "filename": "introduction.html", "title": "An Introduction to the package OSNMTF", "author": "Xiaoyao Yin", "engine": "knitr::rmarkdown", "headings": [ "Installation", "Usage", "Simulation data generation" ], "created": "2019-11-28 12:50:02", "modified": "2019-11-28 12:50:02", "commits": 1 } ], "_score": 2, "_indexed": true, "_nocasepkg": "osnmtf", "_universes": [ "yinxy1992" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.1.0", "date": "2026-05-15T06:12:17.000Z", "distro": "noble", "commit": "e4821f5a3ab385780af747ce31ed4204dfc22448", "fileid": "9c1996d4561dfdefd41efce42ff7e8ad852f067354bec4e208f758b7e289fa56", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/yinxy1992/actions/runs/25903215287" }, { "r": "4.6.0", "os": "linux", "version": "0.1.0", "date": "2026-05-15T06:12:05.000Z", "distro": "noble", "commit": "e4821f5a3ab385780af747ce31ed4204dfc22448", "fileid": "c7f3c03fe22bf2724aeb4a1ba5c605534f89014352604dcdf60a54cb76dcc1b0", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/yinxy1992/actions/runs/25903215287" }, { "r": "4.5.3", "os": "mac", "version": "0.1.0", "date": "2026-05-15T06:14:10.000Z", "commit": "e4821f5a3ab385780af747ce31ed4204dfc22448", "fileid": "e2354a1300cab8333bcf7675dc017eb48289cc8f5ac762714668ed4d1f6bb281", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/yinxy1992/actions/runs/25903215287" }, { "r": "4.6.0", "os": "mac", "version": "0.1.0", "date": "2026-05-15T06:14:03.000Z", "commit": "e4821f5a3ab385780af747ce31ed4204dfc22448", "fileid": "d0dfc7f9f93ef7601c16ab23ec654418789427cde147bd373d5f813fb19fd161", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/yinxy1992/actions/runs/25903215287" }, { "r": "4.7.0", "os": "win", "version": "0.1.0", "date": "2026-05-15T06:11:36.000Z", "commit": "e4821f5a3ab385780af747ce31ed4204dfc22448", "fileid": "a80cb2c14c7178f163e7e332ab665a044964bd23ee1381e740bb61bd9b81de42", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/yinxy1992/actions/runs/25903215287" }, { "r": "4.5.3", "os": "win", "version": "0.1.0", "date": "2026-05-15T06:11:14.000Z", "commit": "e4821f5a3ab385780af747ce31ed4204dfc22448", "fileid": "8e6d49ddbd0b06d2b0724c5bc1db71880798f2cc1848fed8bacd372d1228f7a4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/yinxy1992/actions/runs/25903215287" }, { "r": "4.6.0", "os": "win", "version": "0.1.0", "date": "2026-05-15T06:11:17.000Z", "commit": "e4821f5a3ab385780af747ce31ed4204dfc22448", "fileid": "d413bafb4d0fb716bf603d37950df660a15c85786999c2f746d6d156eea58b4d", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/yinxy1992/actions/runs/25903215287" }, { "r": "4.6.0", "os": "wasm", "version": "0.1.0", "date": "2026-06-02T20:02:05.000Z", "commit": "e4821f5a3ab385780af747ce31ed4204dfc22448", "fileid": "a661584308fd9e6b71a090f551d964a5d27264f85367dad9aa306c1c9d26c0f7", "status": "success", "buildurl": "https://github.com/r-universe/yinxy1992/actions/runs/25903215287" } ] }