{ "_id": "6a1f1694b401979e7341e85a", "Package": "TPES", "Type": "Package", "Title": "Tumor Purity Estimation using SNVs", "Version": "1.0.0", "Date": "2019-01-09", "Author": "Alessio Locallo , Davide Prandi\n, Francesca Demichelis\n", "Maintainer": "Alessio Locallo ", "Description": "A bioinformatics tool for the estimation of the tumor\npurity from sequencing data. It uses the set of putative clonal\nsomatic single nucleotide variants within copy number neutral\nsegments to call tumor cellularity.", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "6.1.1", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-17 06:15:30 UTC", "User": "root" }, "Repository": "https://l0ka.r-universe.dev", "Date/Publication": "2019-01-11 16:40:12 UTC", "RemoteUrl": "https://github.com/cran/TPES", "RemoteRef": "HEAD", "RemoteSha": "cb659b3cf825ddbae1a58b9b41354f7a6e465f1b", "MD5sum": "6d3daf6ffa53d510f4a4e0ee9e148f09", "_user": "l0ka", "_type": "src", "_file": "TPES_1.0.0.tar.gz", "_fileid": "ab86c1b537008d7e2171dfc7dfe5d0d59e1e1846ab332bcf63ce429383d95544", "_filesize": 246419, "_sha256": "ab86c1b537008d7e2171dfc7dfe5d0d59e1e1846ab332bcf63ce429383d95544", "_created": "2026-05-17T06:15:30.000Z", "_published": "2026-06-02T17:44:52.711Z", "_distro": "noble", "_jobs": [ { "job": 79135177671, "time": 100, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7039930558" }, { "job": 79135178314, "time": 148, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7039935436" }, { "job": 79135178336, "time": 199, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7039936550" }, { "job": 79135177944, "time": 110, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7039929623" }, { "job": 79135177047, "time": 144, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7039919555" }, { "job": 79135177151, "time": 72, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7365477120" }, { "job": 79135177761, "time": 75, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7039928007" }, { "job": 79135178518, "time": 65, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7039926874" }, { "job": 79135178174, "time": 65, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7039926719" } ], "_buildurl": "https://github.com/r-universe/l0ka/actions/runs/25983219836", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cran/TPES", "_commit": { "id": "cb659b3cf825ddbae1a58b9b41354f7a6e465f1b", "author": "Alessio Locallo ", "committer": "cran-robot ", "message": "version 1.0.0\n", "time": 1547224812 }, "_maintainer": { "name": "Alessio Locallo", "email": "alessio.locallo@gmail.com", "login": "l0ka", "description": "", "uuid": 20203500 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.10", "role": "Depends" }, { "package": "grDevices", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "stats", "role": "Imports" } ], "_owner": "cran", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 2, "_contributors": [ { "user": "l0ka", "count": 1, "uuid": 20203500 } ], "_userbio": { "uuid": 20203500, "type": "user", "name": "Alessio Locallo" }, "_downloads": { "count": 149, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/TPES" }, "_mentions": 1, "_searchresults": 11, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/TPES.html", "manual.pdf" ], "_realowner": "l0ka", "_cranurl": false, "_releases": [ { "version": "1.0.0", "date": "2019-01-11" } ], "_exports": [ "TPES_purity", "TPES_report" ], "_datasets": [ { "name": "TCGA_A8_A0A7_maf", "title": "SNVsReadCountsFile for sample TCGA-A8-A0A7", "object": "TCGA_A8_A0A7_maf", "class": [ "data.frame" ], "fields": [ "chr", "start", "end", "ref.count", "alt.count", "sample" ], "rows": 5000, "table": true, "tojson": true }, { "name": "TCGA_A8_A0A7_ploidy", "title": "Ploidy data for sample TCGA-A8-A0A7", "object": "TCGA_A8_A0A7_ploidy", "class": [ "data.frame" ], "fields": [ "sample", "ploidy", "log2shift" ], "rows": 1, "table": true, "tojson": true }, { "name": "TCGA_A8_A0A7_seg", "title": "SEG file (segmented data) for sample TCGA-A8-A0A7", "object": "TCGA_A8_A0A7_seg", "class": [ "data.frame" ], "fields": [ "ID", "chrom", "loc.start", "loc.end", "num.mark", "seg.mean" ], "rows": 362, "table": true, "tojson": true }, { "name": "TCGA_HT_8564_maf", "title": "SNVsReadCountsFile for sample TCGA-HT-8564", "object": "TCGA_HT_8564_maf", "class": [ "data.frame" ], "fields": [ "chr", "start", "end", "ref.count", "alt.count", "sample" ], "rows": 5000, "table": true, "tojson": true }, { "name": "TCGA_HT_8564_ploidy", "title": "Ploidy data for sample TCGA-HT-8564", "object": "TCGA_HT_8564_ploidy", "class": [ "data.frame" ], "fields": [ "sample", "ploidy", "log2shift" ], "rows": 1, "table": true, "tojson": true }, { "name": "TCGA_HT_8564_seg", "title": "SEG file (segmented data) for sample TCGA-HT-8564", "object": "TCGA_HT_8564_seg", "class": [ "data.frame" ], "fields": [ "ID", "chrom", "loc.start", "loc.end", "num.mark", "seg.mean" ], "rows": 347, "table": true, "tojson": true } ], "_help": [ { "page": "TCGA_A8_A0A7_maf", "title": "SNVsReadCountsFile for sample TCGA-A8-A0A7", "topics": [ "TCGA_A8_A0A7_maf" ] }, { "page": "TCGA_A8_A0A7_ploidy", "title": "Ploidy data for sample TCGA-A8-A0A7", "topics": [ "TCGA_A8_A0A7_ploidy" ] }, { "page": "TCGA_A8_A0A7_seg", "title": "SEG file (segmented data) for sample TCGA-A8-A0A7", "topics": [ "TCGA_A8_A0A7_seg" ] }, { "page": "TCGA_HT_8564_maf", "title": "SNVsReadCountsFile for sample TCGA-HT-8564", "topics": [ "TCGA_HT_8564_maf" ] }, { "page": "TCGA_HT_8564_ploidy", "title": "Ploidy data for sample TCGA-HT-8564", "topics": [ "TCGA_HT_8564_ploidy" ] }, { "page": "TCGA_HT_8564_seg", "title": "SEG file (segmented data) for sample TCGA-HT-8564", "topics": [ "TCGA_HT_8564_seg" ] }, { "page": "TPES_purity", "title": "Tumor Purity Estimation using SNVs", "topics": [ "TPES_purity" ] }, { "page": "TPES_report", "title": "Tumor Purity Estimation using SNVs", "topics": [ "TPES_report" ] } ], "_rundeps": [], "_score": 1.3424226808222064, "_indexed": true, "_nocasepkg": "tpes", "_universes": [ "l0ka" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.0.0", "date": "2026-05-17T06:17:12.000Z", "distro": "noble", "commit": "cb659b3cf825ddbae1a58b9b41354f7a6e465f1b", "fileid": "1f5d82ab3e19e413548af5654cce5d1fd9068df7c8c442a835a9392f9b0f05d7", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/l0ka/actions/runs/25983219836" }, { "r": "4.6.0", "os": "linux", "version": "1.0.0", "date": "2026-05-17T06:17:57.000Z", "distro": "noble", "commit": "cb659b3cf825ddbae1a58b9b41354f7a6e465f1b", "fileid": "16ae846990689c65a70d8fa74b5d0b871068e8758bc3d0bf6baefbacfcdeb842", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/l0ka/actions/runs/25983219836" }, { "r": "4.5.3", "os": "mac", "version": "1.0.0", "date": "2026-05-17T06:18:08.000Z", "commit": "cb659b3cf825ddbae1a58b9b41354f7a6e465f1b", "fileid": "75889f55b1e0f51b9141de654d56531c2816d51b2f3c68a866b544dab9384cbd", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/l0ka/actions/runs/25983219836" }, { "r": "4.6.0", "os": "mac", "version": "1.0.0", "date": "2026-05-17T06:17:10.000Z", "commit": "cb659b3cf825ddbae1a58b9b41354f7a6e465f1b", "fileid": "bf6e1f49c79e94b2d40e366390de0c8a038cd079c4ec37feacf5d185dc3c43c4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/l0ka/actions/runs/25983219836" }, { "r": "4.7.0", "os": "win", "version": "1.0.0", "date": "2026-05-17T06:16:44.000Z", "commit": "cb659b3cf825ddbae1a58b9b41354f7a6e465f1b", "fileid": "47bb219bd15860d17345e05d1d91bc67068d56728c912e581e7d8098466a835e", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/l0ka/actions/runs/25983219836" }, { "r": "4.5.3", "os": "win", "version": "1.0.0", "date": "2026-05-17T06:16:31.000Z", "commit": "cb659b3cf825ddbae1a58b9b41354f7a6e465f1b", "fileid": "3d2c28b55a4d86446c7d5ec8e7781d3be662e34d92ea500f740a674f5a6b2b21", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/l0ka/actions/runs/25983219836" }, { "r": "4.6.0", "os": "win", "version": "1.0.0", "date": "2026-05-17T06:16:31.000Z", "commit": "cb659b3cf825ddbae1a58b9b41354f7a6e465f1b", "fileid": "ac714c7a6fa93d34ec6ff7cd5622a82136c6d0b84280b68e7e0b67930daaf4eb", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/l0ka/actions/runs/25983219836" }, { "r": "4.6.0", "os": "wasm", "version": "1.0.0", "date": "2026-06-02T17:44:34.000Z", "commit": "cb659b3cf825ddbae1a58b9b41354f7a6e465f1b", "fileid": "83422b12c35ce8a30dbad60cdf462f11a2a963d5f5a247811f97e42c4565ecbd", "status": "success", "buildurl": "https://github.com/r-universe/l0ka/actions/runs/25983219836" } ] }