{ "_id": "6a193b53acfb0bcc41dd437d", "Package": "CGHcall", "Type": "Package", "Title": "Calling aberrations for array CGH tumor profiles.", "Version": "2.74.0", "Date": "2016-09-12", "Author": "Mark van de Wiel, Sjoerd Vosse", "Maintainer": "Mark van de Wiel ", "Description": "Calls aberrations for array CGH data using a six state\nmixture model as well as several biological concepts that are\nignored by existing algorithms. Visualization of profiles is\nalso provided.", "License": "GPL (http://www.gnu.org/copyleft/gpl.html)", "biocViews": "Microarray,Preprocessing,Visualization", "Repository": "https://bioc-release.r-universe.dev", "Date/Publication": "2026-04-28 12:32:31 UTC", "RemoteUrl": "https://github.com/bioc/CGHcall", "RemoteRef": "RELEASE_3_23", "RemoteSha": "b0ce5520c322650cae849698ec61bd35a52e0397", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-29 06:27:23 UTC", "User": "root" }, "MD5sum": "a55820fb74f76447c4d54d63159d1f1c", "_user": "bioc-release", "_type": "src", "_file": "CGHcall_2.74.0.tar.gz", "_fileid": "4527666dc21ff4524abc5bb6d9229a8969b51419b6d50c8826b3fb8a00d39159", "_filesize": 464411, "_sha256": "4527666dc21ff4524abc5bb6d9229a8969b51419b6d50c8826b3fb8a00d39159", "_created": "2026-05-29T06:27:23.000Z", "_published": "2026-05-29T07:08:03.231Z", "_jobs": [ { "job": 78449614664, "time": 133, "config": "bioc-checks", "r": "4.6.0", "check": "ERROR", "artifact": "7284518771" }, { "job": 78449614670, "time": 171, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "7284527257" }, { "job": 78449614665, "time": 133, "config": "linux-release-x86_64", "r": "4.6.0", "check": "WARNING", "artifact": "7284518721" }, { "job": 78449614663, "time": 94, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "WARNING", "artifact": "7285055419" }, { "job": 78449614651, "time": 96, "config": "macos-release-arm64", "r": "4.6.0", "check": "WARNING", "artifact": "7285055071" }, { "job": 78449351922, "time": 133, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7284487825" }, { "job": 78449614659, "time": 100, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7284510589" }, { "job": 78449614673, "time": 79, "config": "windows-devel", "r": "4.7.0", "check": "WARNING", "artifact": "7284506602" }, { "job": 78449614676, "time": 85, "config": "windows-oldrel", "r": "4.5.3", "check": "WARNING", "artifact": "7284507281" }, { "job": 78449614667, "time": 77, "config": "windows-release", "r": "4.6.0", "check": "WARNING", "artifact": "7284505505" } ], "_bioccheck": { "error": 1, "warning": 4, "note": 18 }, "_buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26621812367", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/CGHcall", "_commit": { "id": "b0ce5520c322650cae849698ec61bd35a52e0397", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to even y prior to creation of RELEASE_3_23 branch\n", "time": 1777379551 }, "_maintainer": { "name": "Mark van de Wiel", "email": "mark.vdwiel@vumc.nl", "login": "markvdwiel", "description": "", "uuid": 18324895 }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.0.0", "role": "Depends" }, { "package": "impute", "version": ">= 1.8.0", "role": "Depends" }, { "package": "DNAcopy", "version": ">= 1.6.0", "role": "Depends" }, { "package": "methods", "role": "Depends" }, { "package": "Biobase", "role": "Depends" }, { "package": "CGHbase", "version": ">= 1.15.1", "role": "Depends" }, { "package": "snowfall", "role": "Depends" } ], "_owner": "bioc", "_selfowned": false, "_usedby": 6, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 1 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "2.75.0", "bioc": "3.24" }, { "branch": "release", "version": "2.74.0", "bioc": "3.23" } ], "_topics": [ "microarray", "preprocessing", "visualization" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 832, "source": "https://www.bioconductor.org/packages/stats/bioc/CGHcall" }, "_mentions": 37, "_searchresults": 50, "_rbuild": "4.6.0", "_assets": [ "extra/CGHcall.html", "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "manual.pdf" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "CGHcall", "ExpandCGHcall", "normalize", "postsegnormalize", "preprocess", "segmentData" ], "_datasets": [ { "name": "Wilting", "title": "Cervical cancer arrayCGH data", "object": "Wilting", "file": "Wilting.txt.gz", "class": [ "data.frame" ], "fields": [ "BAC.clone", "CHROMOSOME", "START_POS", "END_POS", "AdCA10", "SCC27", "SCC32", "SCC36", "SCC39" ], "rows": 4127, "table": true, "tojson": true } ], "_help": [ { "page": "CGHcall-package", "title": "Calling aberrations for array CGH tumor profiles.", "topics": [ "CGHcall-package" ] }, { "page": "CGHcall", "title": "Calling aberrations for array CGH tumor profiles.", "topics": [ "CGHcall" ] }, { "page": "ExpandCGHcall", "title": "Expands result fron CGHcall to CGHcall object.", "topics": [ "ExpandCGHcall" ] }, { "page": "normalize", "title": "Normalization and cellularity adjustment for arrayCGH data.", "topics": [ "normalize" ] }, { "page": "postsegnormalize", "title": "Post-segmentation normalization", "topics": [ "postsegnormalize" ] }, { "page": "preprocess", "title": "Preprocess arrayCGH data", "topics": [ "preprocess" ] }, { "page": "segmentData", "title": "Breakpoint detection for arrayCGH data.", "topics": [ "segmentData" ] }, { "page": "Wilting", "title": "Cervical cancer arrayCGH data", "topics": [ "Wilting" ] } ], "_rundeps": [ "Biobase", "BiocGenerics", "CGHbase", "DNAcopy", "generics", "impute", "limma", "marray", "snow", "snowfall", "statmod" ], "_vignettes": [ { "source": "CGHcall.Rnw", "filename": "CGHcall.pdf", "title": "CGHcall", "engine": "utils::Sweave", "headings": [], "created": "2013-11-01 20:01:32", "modified": "2013-11-01 20:01:32", "commits": 1 } ], "_score": 6.255272505103306, "_indexed": false, "_nocasepkg": "cghcall", "_universes": [ "bioc-release" ], "_indexurl": "https://bioc.r-universe.dev/CGHcall", "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "2.74.0", "date": "2026-05-29T06:30:04.000Z", "distro": "noble", "commit": "b0ce5520c322650cae849698ec61bd35a52e0397", "fileid": "4ebaa6e820cc3750af8c9635603b933811a43adeda3386ef927927d8944ed295", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26621812367" }, { "r": "4.6.0", "os": "linux", "version": "2.74.0", "date": "2026-05-29T06:29:26.000Z", "distro": "noble", "commit": "b0ce5520c322650cae849698ec61bd35a52e0397", "fileid": "5f3fde420cbdbc0113eb987c061ac5df906321ac8b884c9b9dad33f8f2996292", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26621812367" }, { "r": "4.5.3", "os": "mac", "version": "2.74.0", "date": "2026-05-29T07:07:26.000Z", "commit": "b0ce5520c322650cae849698ec61bd35a52e0397", "fileid": "0653e219aa502ff834cc9b79fe66d30d917494457fe89a88fe3d8a082e06ea75", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26621812367" }, { "r": "4.6.0", "os": "mac", "version": "2.74.0", "date": "2026-05-29T07:07:26.000Z", "commit": "b0ce5520c322650cae849698ec61bd35a52e0397", "fileid": "a6f525c6b11556006191405beddf9e5bd326c19df72a81b913de935b18eaf9dc", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26621812367" }, { "r": "4.6.0", "os": "wasm", "version": "2.74.0", "date": "2026-05-29T06:29:17.000Z", "commit": "b0ce5520c322650cae849698ec61bd35a52e0397", "fileid": "497894b47b7912369a368410d72956bf611dada8851b76d5f23059fee9cb4025", "status": "success", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26621812367" }, { "r": "4.7.0", "os": "win", "version": "2.74.0", "date": "2026-05-29T06:28:31.000Z", "commit": "b0ce5520c322650cae849698ec61bd35a52e0397", "fileid": "89619ddacd9c376f7d2e000b01a7398db7ee04d14f3b1e3d1edcd96b58dd1dd8", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26621812367" }, { "r": "4.5.3", "os": "win", "version": "2.74.0", "date": "2026-05-29T06:28:31.000Z", "commit": "b0ce5520c322650cae849698ec61bd35a52e0397", "fileid": "4108d550e21f4e98c2cd6bd153f6404f5b474bc5138b548a46ac542b584698a5", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26621812367" }, { "r": "4.6.0", "os": "win", "version": "2.74.0", "date": "2026-05-29T06:28:26.000Z", "commit": "b0ce5520c322650cae849698ec61bd35a52e0397", "fileid": "dc8677628b71210d6ec375509f145066f3d603bf25f5f5c20102c6e470d732fb", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc-release/actions/runs/26621812367" } ] }