{ "_id": "6ab0e5353d719c1f840844dd", "Package": "GMSimpute", "Title": "Generalized Mass Spectrum Missing Peaks Abundance Imputation", "Version": "0.0.1.0", "Authors@R": "person(\"Qian\", \"Li\", email = \"qian.li10000@gmail.com\", role = c(\"aut\", \"cre\"))", "Description": "GMSimpute implements the Two-Step Lasso (TS-Lasso) and\ncompound minimum to recover the abundance of missing peaks in\nmass spectrum analysis. TS-Lasso is a label-free imputation\nmethod that handles various types of missing peaks\nsimultaneously. This package provides the procedure to generate\nmissing peaks (or data) for simulation study, as well as a tool\nto estimate and visualize the proportion of missing at random.", "License": "GPL(>=2)", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "6.1.0", "Config/pak/sysreqs": "libicu-dev", "Repository": "https://qianli10000.r-universe.dev", "Date/Publication": "2018-12-04 16:26:00 UTC", "RemoteUrl": "https://github.com/qianli10000/gmsimpute", "RemoteRef": "HEAD", "RemoteSha": "c0f55aa72c79ac90ad78d31041d7d355c2c638d9", "NeedsCompilation": "no", "Packaged": { "Date": "2026-09-21 08:01:41 UTC", "User": "root" }, "Author": "Qian Li [aut, cre]", "Maintainer": "Qian Li ", "_user": "qianli10000", "_type": "src", "_file": "GMSimpute_0.0.1.0.tar.gz", "_fileid": "https://r2.ropensci.org/712a872b79d865add5af94e7c71d3847a64b8d42a8c804d925f8b006fc1eeb54", "_filesize": 242586, "_sha256": "712a872b79d865add5af94e7c71d3847a64b8d42a8c804d925f8b006fc1eeb54", "_expires": "2026-12-30T08:05:07.000Z", "_created": "2026-09-21T08:01:41.000Z", "_published": "2026-09-21T08:05:09.562Z", "_jobs": [ { "job": 106257297288, "time": 155, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "10628101193" }, { "job": 106257297330, "time": 159, "config": "linux-release-x86_64", "r": "4.6.1", "check": "ERROR", "artifact": "10628146985" }, { "job": 106257297352, "time": 151, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "ERROR", "artifact": "10628675948" }, { "job": 106257297290, "time": 135, "config": "macos-release-arm64", "r": "4.6.1", "check": "ERROR", "artifact": "10628306703" }, { "job": 106256379992, "time": 203, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "10628276296" }, { "job": 106257297271, "time": 112, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "10627617722" }, { "job": 106257297353, "time": 104, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "10628331496" }, { "job": 106257297323, "time": 91, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "ERROR", "artifact": "10628615941" }, { "job": 106257297372, "time": 143, "config": "windows-release-x86_64", "r": "4.6.1", "check": "ERROR", "artifact": "10628735644" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/qianli10000/actions/runs/35575489113", "_status": "success", "_upstream": "https://github.com/qianli10000/gmsimpute", "_commit": { "id": "c0f55aa72c79ac90ad78d31041d7d355c2c638d9", "author": "Qian Li ", "committer": "GitHub ", "message": "Add files via upload", "time": 1543940760 }, "_maintainer": { "name": "Qian Li", "email": "qian.li10000@gmail.com", "login": "qianli10000", "description": "Assistant Professor", "uuid": 28223432 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "utils", "role": "Imports" }, { "package": "glmnet", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "reshape2", "role": "Imports" } ], "_owner": "qianli10000", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 0, "_contributors": [ { "user": "qianli10000", "count": 21, "uuid": 28223432 } ], "_userbio": { "uuid": 28223432, "type": "user", "name": "Qian Li", "followers": 0, "description": "Assistant Professor" }, "_downloads": { "count": 287, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/GMSimpute" }, "_devurl": "https://github.com/qianli10000/gmsimpute", "_searchresults": 40, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/GMSimpute.html", "extra/manual.pdf", "extra/readme.html", "extra/readme.md" ], "_homeurl": "https://github.com/qianli10000/gmsimpute", "_realowner": "qianli10000", "_cranurl": true, "_releases": [ { "version": "0.0.1.0", "date": "2019-01-11" } ], "_exports": [ "GMS.Lasso", "MAR.est", "missing.sim", "TS.Lasso" ], "_datasets": [ { "name": "replicates", "title": "Raw mass spectrum proteomics log abundance for 4 pairs of technical replicates.", "object": "replicates", "class": [ "data.frame" ], "fields": [ "Intensity.C1.1", "Intensity.C1.2", "Intensity.C2.1", "Intensity.C2.2", "Intensity.D1.1", "Intensity.D1.2", "Intensity.D2.1", "Intensity.D2.2" ], "rows": 85, "table": true, "tojson": true }, { "name": "tcga.bc", "title": "Raw mass spectrum metabolomics data for TCGA breast cancer study.", "object": "tcga.bc", "class": [ "data.frame" ], "fields": [ "DUKE.00650", "DUKE.00651", "DUKE.00652", "DUKE.00653", "DUKE.00654", "DUKE.00655", "DUKE.00656", "DUKE.00657", "DUKE.00658", "DUKE.00659", "DUKE.00660", "DUKE.00661", "DUKE.00662", "DUKE.00663", "DUKE.00664", "DUKE.00665", "DUKE.00666", "DUKE.00667", "DUKE.00668", "DUKE.00669", "DUKE.00670", "DUKE.00671", "DUKE.00672", "DUKE.00673", "DUKE.00674", "DUKE.00675", "DUKE.00676", "DUKE.00677", "DUKE.00678", "DUKE.00679" ], "rows": 150, "table": true, "tojson": true }, { "name": "tcga.bc.full", "title": "A subset of mass spectrum metabolomics data for TCGA breast cancer study without missing peaks.", "object": "tcga.bc.full", "class": [ "matrix", "array" ], "fields": [ "DUKE.00650", "DUKE.00651", "DUKE.00652", "DUKE.00653", "DUKE.00654", "DUKE.00655", "DUKE.00656", "DUKE.00657", "DUKE.00658", "DUKE.00659", "DUKE.00660", "DUKE.00661", "DUKE.00662", "DUKE.00663", "DUKE.00664", "DUKE.00665", "DUKE.00666", "DUKE.00667", "DUKE.00668", "DUKE.00669", "DUKE.00670", "DUKE.00671", "DUKE.00672", "DUKE.00673", "DUKE.00674", "DUKE.00675", "DUKE.00676", "DUKE.00677", "DUKE.00678", "DUKE.00679" ], "rows": 100, "table": true, "tojson": true } ], "_help": [ { "page": "GMS.Lasso", "title": "Generalized Mass Spectrum missing peaks imputation with Two-Step Lasso as default algorithm", "topics": [ "GMS.Lasso" ] }, { "page": "GTS.Lasso", "title": "Generalized Two-Step Lasso for missing peaks imputation", "topics": [ "GTS.Lasso" ] }, { "page": "MAR.est", "title": "Missing At Random (MAR) proportion estimation based on technical replicates.", "topics": [ "MAR.est" ] }, { "page": "missing.sim", "title": "Missing peaks generating procedure for simulation study", "topics": [ "missing.sim" ] }, { "page": "replicates", "title": "Raw mass spectrum proteomics log abundance for 4 pairs of technical replicates.", "topics": [ "replicates" ] }, { "page": "tcga.bc", "title": "Raw mass spectrum metabolomics data for TCGA breast cancer study.", "topics": [ "tcga.bc" ] }, { "page": "tcga.bc.full", "title": "A subset of mass spectrum metabolomics data for TCGA breast cancer study without missing peaks.", "topics": [ "tcga.bc.full" ] }, { "page": "TS.Lasso", "title": "Two-Step Lasso for missing peaks imputation", "topics": [ "TS.Lasso" ] } ], "_readme": "https://github.com/qianli10000/gmsimpute/raw/HEAD/README.md", "_rundeps": [ "cli", "codetools", "cpp11", "farver", "foreach", "ggplot2", "glmnet", "glue", "gtable", "isoband", "iterators", "labeling", "lattice", "lifecycle", "magrittr", "Matrix", "plyr", "R6", "RColorBrewer", "Rcpp", "RcppEigen", "reshape2", "rlang", "S7", "scales", "shape", "stringi", "stringr", "survival", "vctrs", "viridisLite", "withr" ], "_score": 3.3010299956639813, "_indexed": true, "_nocasepkg": "gmsimpute", "_universes": [ "qianli10000" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.0.1.0", "date": "2026-09-21T08:03:57.000Z", "distro": "resolute", "commit": "c0f55aa72c79ac90ad78d31041d7d355c2c638d9", "fileid": "https://r2.ropensci.org/c9e6c78cddeb0b2f3c87f1e7f148893bb251d2bdab3d0e442b8610ff9bcc8dbd", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/qianli10000/actions/runs/35575489113" }, { "r": "4.6.1", "os": "linux", "version": "0.0.1.0", "date": "2026-09-21T08:03:58.000Z", "distro": "resolute", "commit": "c0f55aa72c79ac90ad78d31041d7d355c2c638d9", "fileid": "https://r2.ropensci.org/9e70198db61ef4a96860ca1bb9d756de062e51398ab30a8499a7e16532826a1a", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/qianli10000/actions/runs/35575489113" }, { "r": "4.5.3", "os": "mac", "version": "0.0.1.0", "date": "2026-09-21T08:04:04.000Z", "commit": "c0f55aa72c79ac90ad78d31041d7d355c2c638d9", "fileid": "https://r2.ropensci.org/4c775d7a65699c04a2ffc4d53b4688642c4465cb6b78f7171e6662327af8b4c0", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/qianli10000/actions/runs/35575489113" }, { "r": "4.6.1", "os": "mac", "version": "0.0.1.0", "date": "2026-09-21T08:03:46.000Z", "commit": "c0f55aa72c79ac90ad78d31041d7d355c2c638d9", "fileid": "https://r2.ropensci.org/e52133a204f9eea3d35984b26369c1adafb72b16cf406302e439c08b6deba260", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/qianli10000/actions/runs/35575489113" }, { "r": "4.6.0", "os": "wasm", "version": "0.0.1.0", "date": "2026-09-21T08:03:54.000Z", "commit": "c0f55aa72c79ac90ad78d31041d7d355c2c638d9", "fileid": "https://r2.ropensci.org/4ab8fea3c9586254888aa728cfd45a128302e51f70dc12dec2d57dd3a7f56aa6", "status": "success", "buildurl": "https://github.com/r-universe/qianli10000/actions/runs/35575489113" }, { "r": "4.7.0", "os": "win", "version": "0.0.1.0", "date": "2026-09-21T08:02:56.000Z", "commit": "c0f55aa72c79ac90ad78d31041d7d355c2c638d9", "fileid": "https://r2.ropensci.org/1b7d3d91f0a78234eb6309d569c2e831159c9bf9f2bd193cf5f67846219b6f98", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/qianli10000/actions/runs/35575489113" }, { "r": "4.5.3", "os": "win", "version": "0.0.1.0", "date": "2026-09-21T08:02:53.000Z", "commit": "c0f55aa72c79ac90ad78d31041d7d355c2c638d9", "fileid": "https://r2.ropensci.org/c622247bad9eb930f8420823be6d5f78b6607ff563ce95be3cca596d501cc44f", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/qianli10000/actions/runs/35575489113" }, { "r": "4.6.1", "os": "win", "version": "0.0.1.0", "date": "2026-09-21T08:03:24.000Z", "commit": "c0f55aa72c79ac90ad78d31041d7d355c2c638d9", "fileid": "https://r2.ropensci.org/4e0825fca8e90df4784adbd30ef56793c54db16c66186bca2fdd22e5b99aa8bb", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/qianli10000/actions/runs/35575489113" } ] }