{ "_id": "6a155999acfb0bcc41d5edc2", "Package": "RTCC", "Type": "Package", "Title": "Detecting Trait Clustering in Environmental Gradients", "Version": "0.1.1", "Author": "Mateu Menendez-Serra, Vicente J. Ontiveros, Emilio O.\nCasamayor, David Alonso", "Maintainer": "Mateu Menendez-Serra ", "Description": "The Randomized Trait Community Clustering method\n(Triado-Margarit et al., 2019, )\nis a statistical approach which allows to determine whether if\nan observed trait clustering pattern is related to an\nincreasing environmental constrain. The method 1) determines\nwhether exists or not a trait clustering on the sampled\ncommunities and 2) assess if the observed clustering signal is\nrelated or not to an increasing environmental constrain along\nan environmental gradient. Also, when the effect of the\nenvironmental gradient is not linear, allows to determine\nconsistent thresholds on the community assembly based on\ntrait-values.", "License": "GPL-3", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "7.1.0", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-05-26 08:22:36 UTC", "User": "root" }, "Config/pak/sysreqs": "cmake make libuv1-dev", "Repository": "https://mateumenendez.r-universe.dev", "Date/Publication": "2020-06-12 16:50:03 UTC", "RemoteUrl": "https://github.com/cran/RTCC", "RemoteRef": "HEAD", "RemoteSha": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "MD5sum": "3b547531dda47f8c3cc5049299d63bd4", "_user": "mateumenendez", "_type": "src", "_file": "RTCC_0.1.1.tar.gz", "_fileid": "1cda601b309ffc19a51338fcc9e407e25cca2c02af12a36b721ab3bab5964b8e", "_filesize": 161861, "_sha256": "1cda601b309ffc19a51338fcc9e407e25cca2c02af12a36b721ab3bab5964b8e", "_created": "2026-05-26T08:22:36.000Z", "_published": "2026-05-26T08:28:09.054Z", "_distro": "noble", "_jobs": [ { "job": 77835184035, "time": 163, "config": "linux-devel-arm64", "r": "4.7.0", "check": "OK", "artifact": "7212255557" }, { "job": 77835184012, "time": 134, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7212246390" }, { "job": 77835184060, "time": 170, "config": "linux-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7212258034" }, { "job": 77835184164, "time": 130, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7212244734" }, { "job": 77835183994, "time": 155, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7212243026" }, { "job": 77835184078, "time": 285, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "7212286771" }, { "job": 77835184189, "time": 162, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7212243598" }, { "job": 77835184006, "time": 298, "config": "macos-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7212290625" }, { "job": 77834722933, "time": 178, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7212203006" }, { "job": 77835184030, "time": 111, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7212238379" }, { "job": 77835183984, "time": 146, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7212249811" }, { "job": 77835184124, "time": 136, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7212247352" }, { "job": 77835184076, "time": 140, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7212248203" } ], "_buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cran/RTCC", "_commit": { "id": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "author": "Mateu Menendez-Serra ", "committer": "cran-robot ", "message": "version 0.1.1\n", "time": 1591980603 }, "_maintainer": { "name": "Mateu Menendez-Serra", "email": "mateu.menendez@ceab.csic.es", "login": "mateumenendez", "description": "", "uuid": 34509155 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "testthat", "role": "LinkingTo" }, { "package": "Rcpp", "role": "LinkingTo" }, { "package": "matrixStats", "role": "Imports" }, { "package": "vegan", "role": "Imports" }, { "package": "Rcpp", "role": "Imports" }, { "package": "testthat", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "cran", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 0, "_contributors": [ { "user": "mateumenendez", "count": 2, "uuid": 34509155 } ], "_userbio": { "uuid": 34509155, "type": "user", "name": "Mateu Menéndez-Serra" }, "_downloads": { "count": 184, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/RTCC" }, "_mentions": 1, "_searchresults": 2, "_topics": [ "cpp" ], "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/RTCC.html", "manual.pdf" ], "_realowner": "mateumenendez", "_cranurl": false, "_releases": [ { "version": "0.1.0", "date": "2020-03-31" }, { "version": "0.1.1", "date": "2020-06-12" } ], "_exports": [ "rtcc1", "rtcc2", "rtcc3" ], "_datasets": [ { "name": "group_information", "title": "Genomic data linked to saline lagoons.", "object": "group_information", "class": [ "data.frame" ], "fields": [ "genome", "Genome_Size", "GC_perc", "Coding_base_perc", "CDS_perc", "RNA_perc", "rRNA_count", "Transporter_perc", "Signal_peptide_perc", "Transmembrane_perc", "Gene_Count", "max_env", "min_env", "rel_abundance" ], "rows": 544, "table": true, "tojson": true }, { "name": "metadata", "title": "Salinity values of saline lagoons.", "object": "metadata", "class": [ "data.frame" ], "fields": [ "sample_ID", "salinity" ], "rows": 136, "table": true, "tojson": true }, { "name": "table_presence_absence", "title": "Genome presence-absence data of 136 saline lagoons.", "object": "table_presence_absence", "class": [ "data.frame" ], "fields": [ "genome", "MON_77", "MON_82", "MON_86", "MON_128", "MON_135", "MON_2", "MON_4", "MON_5", "MON_8", "MON_9", "MON_11", "MON_21", "MON_22", "MON_55", "MON_94", "MON_95", "MON_96", "MON_97", "MON_98", "MON_99", "MON_107", "MON_108", "MON_110", "MON_111", "MON_123", "MON_124", "MON_147", "MON_148", "MON_10", "MON_12", "MON_15", "MON_18", "MON_19", "MON_20", "MON_23", "MON_30", "MON_32", "MON_34", "MON_35", "MON_45", "MON_52", "MON_54", "MON_68", "MON_90", "MON_91", "MON_92", "MON_93", "MON_104", "MON_109", "MON_112", "MON_120", "MON_125", "MON_140", "MON_141", "MON_142", "MON_146", "MON_7", "MON_14", "MON_17", "MON_24", "MON_26", "MON_28", "MON_31", "MON_33", "MON_36", "MON_37", "MON_39", "MON_43", "MON_44", "MON_46", "MON_48", "MON_50", "MON_51", "MON_53", "MON_56", "MON_59", "MON_63", "MON_76", "MON_81", "MON_85", "MON_100", "MON_103", "MON_106", "MON_117", "MON_119", "MON_122", "MON_136", "MON_137", "MON_138", "MON_139", "MON_145", "MON_13", "MON_25", "MON_27", "MON_29", "MON_38", "MON_40", "MON_41", "MON_42", "MON_47", "MON_49", "MON_57", "MON_58", "MON_61", "MON_64", "MON_65", "MON_66", "MON_70", "MON_71", "MON_72", "MON_73", "MON_74", "MON_79", "MON_101", "MON_113", "MON_114", "MON_116", "MON_118", "MON_126", "MON_127", "MON_130", "MON_144", "MON_60", "MON_62", "MON_67", "MON_69", "MON_75", "MON_78", "MON_80", "MON_83", "MON_84", "MON_88", "MON_129", "MON_131", "MON_133", "MON_134" ], "rows": 544, "table": true, "tojson": true } ], "_help": [ { "page": "group_information", "title": "Genomic data linked to saline lagoons.", "topics": [ "group_information" ] }, { "page": "metadata", "title": "Salinity values of saline lagoons.", "topics": [ "metadata" ] }, { "page": "RTCC", "title": "RTCC: Detecting trait clustering in environmental gradients with the Randomized Trait Community Clustering method", "topics": [ "RTCC" ] }, { "page": "rtcc1", "title": "Trait selection", "topics": [ "rtcc1" ] }, { "page": "rtcc2", "title": "Clustering signal along an environmental gradient", "topics": [ "rtcc2" ] }, { "page": "rtcc3", "title": "Clustering signal significance.", "topics": [ "rtcc3" ] }, { "page": "table_presence_absence", "title": "Genome presence-absence data of 136 saline lagoons.", "topics": [ "table_presence_absence" ] } ], "_rundeps": [ "brio", "callr", "cli", "cluster", "crayon", "desc", "diffobj", "evaluate", "fs", "glue", "jsonlite", "lattice", "lifecycle", "magrittr", "MASS", "Matrix", "matrixStats", "mgcv", "nlme", "permute", "pkgbuild", "pkgload", "praise", "processx", "ps", "R6", "Rcpp", "rlang", "rprojroot", "testthat", "vegan", "waldo", "withr" ], "_sysdeps": [ { "shlib": "libstdc++", "package": "libstdc++6", "source": "gcc", "version": "14.2.0-4ubuntu2~24.04.1", "name": "c++", "homepage": "http://gcc.gnu.org/", "description": "GNU Standard C++ Library v3" } ], "_score": 1, "_indexed": true, "_nocasepkg": "rtcc", "_universes": [ "mateumenendez" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.1.1", "date": "2026-05-26T08:25:15.000Z", "distro": "noble", "arch": "aarch64", "commit": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "fileid": "0710d2020ffd0db8fcd57936776bb0f98d1c27717441f2b5f67a38829d8067c6", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301" }, { "r": "4.7.0", "os": "linux", "version": "0.1.1", "date": "2026-05-26T08:24:43.000Z", "distro": "noble", "arch": "x86_64", "commit": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "fileid": "1af1ee50161b3493d5ad5983e7f0c5b02860c393a6f06bffb1950d569dd4b5f5", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301" }, { "r": "4.6.0", "os": "linux", "version": "0.1.1", "date": "2026-05-26T08:25:23.000Z", "distro": "noble", "arch": "aarch64", "commit": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "fileid": "3ccb9faf2968e4806e3827d54a693d4bbf690f63b40d3bc7bd19288e65e7f379", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301" }, { "r": "4.6.0", "os": "linux", "version": "0.1.1", "date": "2026-05-26T08:24:42.000Z", "distro": "noble", "arch": "x86_64", "commit": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "fileid": "a3e06b408ec100170786af6e4c27d9c4bbf6fc58a1478d04d12a55636622a297", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301" }, { "r": "4.5.3", "os": "mac", "version": "0.1.1", "date": "2026-05-26T08:24:42.000Z", "arch": "aarch64", "commit": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "fileid": "48428d73fba601eeccbdedb155e11f7fe79af139cdd722a6fdf046b32798a30b", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301" }, { "r": "4.5.3", "os": "mac", "version": "0.1.1", "date": "2026-05-26T08:26:10.000Z", "arch": "x86_64", "commit": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "fileid": "acc26186b6c742fb68b7de4b77bc68647c7ca494527fe311c043830783d56155", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301" }, { "r": "4.6.0", "os": "mac", "version": "0.1.1", "date": "2026-05-26T08:24:35.000Z", "arch": "aarch64", "commit": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "fileid": "afa2bbe8a83a73b479f05836e75ff04e71f5155bba9acb50dcdb4dd88238b480", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301" }, { "r": "4.6.0", "os": "mac", "version": "0.1.1", "date": "2026-05-26T08:26:34.000Z", "arch": "x86_64", "commit": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "fileid": "727d16112b514a8818e53f6f3142fd2ea9c2762add3ddb82d8b132ccee31680e", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301" }, { "r": "4.6.0", "os": "wasm", "version": "0.1.1", "date": "2026-05-26T08:24:42.000Z", "arch": "emscripten", "commit": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "fileid": "70b21d2abf0486a82b3cdb35193213a7e2ab9d1d72d8ee1bb8058211c5be7fc0", "status": "success", "buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301" }, { "r": "4.7.0", "os": "win", "version": "0.1.1", "date": "2026-05-26T08:24:31.000Z", "arch": "x86_64", "commit": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "fileid": "0478702df46eeafd62ed1862e085207bbed4eefb13c115d7bdb20926bc259073", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301" }, { "r": "4.5.3", "os": "win", "version": "0.1.1", "date": "2026-05-26T08:24:31.000Z", "arch": "x86_64", "commit": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "fileid": "ae48d5e8717dd7a9893e4bbcec177f6d2254c13ac4756c988b2c552f77c7799b", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301" }, { "r": "4.6.0", "os": "win", "version": "0.1.1", "date": "2026-05-26T08:24:30.000Z", "arch": "x86_64", "commit": "028d47d02e698ac9e074f0fd70aa60252e8ae298", "fileid": "a85e1e226677d605bc34e289e2fb0b1b61800e52108b5a78029bb9b0619dbb6c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/mateumenendez/actions/runs/26440860301" } ] }