{ "_id": "6a1fec73b401979e73440c3d", "Package": "clustur", "Type": "Package", "Title": "Clustering", "Version": "0.1.4", "Date": "2025-12-12", "Authors@R": "c(\nperson(\"Gregory\", \"Johnson\", , \"grejoh@umich.edu\", role = c(\"aut\"),\ncomment = c(ORCID = \"0009-0008-3890-0297\")),\nperson(\"Sarah\", \"Westcott\", , \"swestcot@umich.edu\", role = c(\"aut\")),\nperson(\"Patrick\", \"Schloss\", , \"pschloss@umich.edu\", role = c(\"aut\", \"cre\", \"cph\"),\ncomment = c(ORCID = \"0000-0002-6935-4275\"))\n)", "Maintainer": "Patrick Schloss ", "Description": "A tool that implements the clustering algorithms from\n'mothur' (Schloss PD et al. (2009) ).\n'clustur' make use of the cluster() and make.shared() command\nfrom 'mothur'. Our cluster() function has five different\nalgorithms implemented: 'OptiClust', 'furthest', 'nearest',\n'average', and 'weighted'. 'OptiClust' is an optimized\nclustering method for Operational Taxonomic Units, and you can\nlearn more here, (Westcott SL, Schloss PD (2017)\n). The make.shared()\ncommand is always applied at the end of the clustering command.\nThis functionality allows us to generate and create clustering\nand abundance data efficiently.", "License": "GPL (>= 3)", "Encoding": "UTF-8", "Config/testthat/edition": "3", "RoxygenNote": "7.3.2", "VignetteBuilder": "knitr", "URL": "http://www.schlosslab.org/clustur/,\nhttps://github.com/SchlossLab/clustur", "BugReports": "https://github.com/SchlossLab/clustur/issues", "Config/pak/sysreqs": "cmake make libuv1-dev", "Repository": "https://schlosslab.r-universe.dev", "Date/Publication": "2026-01-07 20:25:54 UTC", "RemoteUrl": "https://github.com/schlosslab/clustur", "RemoteRef": "HEAD", "RemoteSha": "5d646f88945a4dcdb105c0103d0b4c0a76370f78", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-06-03 08:46:30 UTC", "User": "root" }, "Author": "Gregory Johnson [aut] (ORCID: ),\nSarah Westcott [aut],\nPatrick Schloss [aut, cre, cph] (ORCID:\n)", "MD5sum": "52d685580a7096998dcfbbdf6e9de6a0", "_user": "schlosslab", "_type": "src", "_file": "clustur_0.1.4.tar.gz", "_fileid": "2836bcfc98c9db0e9a945524081e5637e1dfb7870e249bac229661c3a7153858", "_filesize": 331715, "_sha256": "2836bcfc98c9db0e9a945524081e5637e1dfb7870e249bac229661c3a7153858", "_created": "2026-06-03T08:46:30.000Z", "_published": "2026-06-03T08:57:23.790Z", "_distro": "noble", "_jobs": [ { "job": 79256352181, "time": 255, "config": "linux-devel-arm64", "r": "4.7.0", "check": "OK", "artifact": "7379969160" }, { "job": 79256352211, "time": 224, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7379957226" }, { "job": 79256352178, "time": 258, "config": "linux-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7379970191" }, { "job": 79256352221, "time": 226, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7379957603" }, { "job": 79256352166, "time": 170, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7379937082" }, { "job": 79256352137, "time": 490, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "7380051371" }, { "job": 79256352154, "time": 192, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7379945420" }, { "job": 79256352177, "time": 395, "config": "macos-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7380018069" }, { "job": 79255225654, "time": 395, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7379874495" }, { "job": 79256352118, "time": 237, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7379961839" }, { "job": 79256352128, "time": 367, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7380008342" }, { "job": 79256352165, "time": 297, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7379983466" }, { "job": 79256352146, "time": 334, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7379996291" } ], "_buildurl": "https://github.com/r-universe/schlosslab/actions/runs/26873664707", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/schlosslab/clustur", "_commit": { "id": "5d646f88945a4dcdb105c0103d0b4c0a76370f78", "author": "Gregory Johnson <31873199+GregJohnsonJr@users.noreply.github.com>", "committer": "GitHub ", "message": "Dev (#62)\n\n* Added unit test and created a easy opticluster function\n\n* Release v0.0.1 (#1)\n\n* Fixed the wrapper for Calling Opticluster!\r\n\r\n* Fixing the .RD file\r\n\r\n* Fixed issue where opticluster was returning a matrix array and not a data.frame.\r\n\r\n* Changing documentation\r\n\r\n* Fixing the warnings from building the code.\r\n\r\n* Update to the test\r\n\r\n* Updating the gitignore\n\n* Add cpp test (#3)\n\n* Added Cpp testing structure!\r\n\r\n* Added Test Fixture Class\r\n\r\n* Forced the cluster to only return OTU data, and created the fix test fixture with test!\r\n\r\n* Created all of the test for the optimatrix adapter and removed the .dll from being tracked!\r\n\r\n* Created all the test in the testfixture for listvectors and now I am adding them to the test files.\r\n\r\n* Created base test for listVector\r\n\r\n* Basic test for listVector are completed!\r\n\r\n* Created the basic structure and test fixture for cluster commands\r\n\r\n* Cluster Testing suite being pushed up!\r\n\r\n* Fix cluster algorithm (#2)\r\n\r\n* Fixed a slew of issues by adding bidirection distances.\r\n\r\n* Fixed the clustering issue, clustering should be working correctly now!\r\n\r\n* Generated Definitions for OptiCluster Test\r\n\r\n* Finished creating unit test of the cluster command and opticluster\r\n\r\n* Added OptiData test fixture\r\n\r\n* Started creating the unit test for utils\r\n\r\n* Utils command cluster and test work as expected!!\r\n\r\n* Removed old code from one of the testing suites.\r\n\r\n* Added another test in utils.\r\n\r\n* Clustor has a 89% test coverage! Everything should be tested and ready to merge back!\n\n* RMD Check is able to run successfully!\n\n* Correcting the paths of my cpp files, should fix the action errors.\n\n* Update to the cluster command test fixture\n\n* Modifying the test for opticluster\n\n* Ensuring everything works with c++11\n\n* Removing code issues from cluster command\n\n* Adding the build ignore\n\n* Founds some issue where I am using c++ 17 syntax and not 11.\n\n* Github action fixes, needed to update syntax towards cpp 11\n\n* Mod", "time": 1767817554 }, "_maintainer": { "name": "Patrick Schloss", "email": "pschloss@umich.edu", "login": "pschloss", "orcid": "0000-0002-6935-4275", "description": "A microbiologist at the University of Michigan. ORCID: 0000-0002-6935-4275. 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