{ "_id": "6a1d3e021d7bb097a0a40175", "Package": "BiostatsUHNplus", "Title": "Nested Data Summary, Adverse Events and REDCap", "Version": "1.0.4", "Authors@R": "c(\nperson(\"Lisa\", \"Avery\", , \"lisa.avery@uhn.ca\", role = \"aut\",\ncomment = c(ORCID = \"0000-0002-8431-5143\")),\nperson(\"Zeynep\", \"Baskurt\", , \"zeynep.baskurt@uhn.ca\", role = \"aut\"),\nperson(\"Osvaldo\", \"Espin-Garcia\", , \"osvaldo.espin-garcia@uhn.ca\", role = \"aut\"),\nperson(\"Katrina\", \"Hueniken\", , \"katrina.hueniken@uhn.ca\", role = \"aut\"),\nperson(\"Katherine\", \"Lajkosz\", , \"katherine.lajkosz@uhn.ca\", role = \"aut\",\ncomment = c(ORCID = \"0000-0003-3760-5401\")),\nperson(\"Xuan\", \"Li\", , \"xuan.li@uhnresearch.ca\", role = \"aut\"),\nperson(\"Tyler\", \"Pittman\", , \"tyler.pittman@uhn.ca\", role = c(\"cre\", \"aut\"),\ncomment = c(ORCID = \"0000-0002-5013-6980\")),\nperson(\"Anna\", \"Santiago\", , \"anna.santiago@uhn.ca\", role = \"aut\",\ncomment = c(ORCID = \"0000-0002-0932-2386\")),\nperson(\"Jessica\", \"Weiss\", , \"jessica.weiss@uhn.ca\", role = \"aut\"),\nperson(\"Wei\", \"Xu\", , \"wei.xu@uhn.ca\", role = \"aut\")\n)", "Description": "Tools and code snippets for summarizing nested data,\nadverse events and REDCap study information.", "License": "MIT + file LICENSE", "Config/testthat/edition": "3", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "7.3.2", "Collate": "'data.R' 'globals.R' 'as_numeric_parse.R' 'covsum_nested.R'\n'dsmb_ccru.R' 'nice_mcmcglmm.R' 'nice_mcmcglmm_icc.R'\n'ae_timeline_plot.R' 'caterpillar_plot.R' 'redcap_data_out.R'\n'rm_ae_all_g3p.R' 'dsmb_ddp.R'", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-01 08:03:14 UTC", "User": "root" }, "Author": "Lisa Avery [aut] (ORCID:\n), Zeynep Baskurt [aut],\nOsvaldo Espin-Garcia [aut], Katrina Hueniken [aut], Katherine\nLajkosz [aut] (ORCID: ),\nXuan Li [aut], Tyler Pittman [cre, aut] (ORCID:\n), Anna Santiago [aut]\n(ORCID: ), Jessica Weiss\n[aut], Wei Xu [aut]", "Maintainer": "Tyler Pittman ", "Config/pak/sysreqs": "cmake libfontconfig1-dev libfreetype6-dev\nlibfribidi-dev make libharfbuzz-dev libicu-dev libpng-dev\nlibuv1-dev libxml2-dev", "Repository": "https://tylerpittman.r-universe.dev", "Date/Publication": "2026-01-30 17:00:02 UTC", "RemoteUrl": "https://github.com/cran/BiostatsUHNplus", "RemoteRef": "HEAD", "RemoteSha": "41c0fe69f52de02588d40ee49b89135d5ec82930", "MD5sum": "2d53554300b9f6221d2349d45f904d86", "_user": "tylerpittman", "_type": "src", "_file": "BiostatsUHNplus_1.0.4.tar.gz", "_fileid": "1233a07a47da76e84d19caa598b33fb7db85a1c98eab1ab346fc45a6c7dd3938", "_filesize": 1842619, "_sha256": "1233a07a47da76e84d19caa598b33fb7db85a1c98eab1ab346fc45a6c7dd3938", "_created": "2026-06-01T08:03:14.000Z", "_published": "2026-06-01T08:08:34.547Z", "_distro": "noble", "_jobs": [ { "job": 78810568512, "time": 218, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7326360862" }, { "job": 78810568485, "time": 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"as_numeric_parse", "caterpillar_plot", "dsmb_ccru", "dsmb_ddp", "nice_mcmcglmm", "nice_mcmcglmm_icc", "redcap_data_out", "rm_ae_all_g3p", "rm_covsum_nested" ], "_datasets": [ { "name": "ae", "title": "Simulated adverse events for patients receiving two study agents.", "object": "ae", "class": [ "data.frame" ], "fields": [ "Subject", "ae_detail", "ae_category", "CTCAE5_LLT_NM", "AE_VERBATIM_TRM_TXT", "AE_SEV_GD", "AE_ONSET_DT_INT", "CTC_AE_ATTR_SCALE", "CTC_AE_ATTR_SCALE_1" ], "rows": 349, "table": true, "tojson": true }, { "name": "demography", "title": "Simulated demography for patients.", "object": "demography", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "Subject", "GENDER_CODE" ], "rows": 12, "table": true, "tojson": true }, { "name": "drug1_admin", "title": "Simulated study agent 1 for patients.", "object": "drug1_admin", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "Subject", "TX1_DATE_INT" ], "rows": 12, "table": true, "tojson": true }, { "name": "drug2_admin", "title": "Simulated study agent 2 for patients.", "object": "drug2_admin", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "Subject", "TX2_DATE_INT" ], "rows": 12, "table": true, "tojson": true }, { "name": "enrollment", "title": "Enrollment data Simulated enrollment for patients.", "object": "enrollment", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "Subject", "COHORT", "ENROL_DATE_INT" ], "rows": 12, "table": true, "tojson": true }, { "name": "ineligibility", "title": "Simulated ineligibility for patients.", "object": "ineligibility", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "Subject", "INELIGIBILITY_STATUS" ], "rows": 11, "table": true, "tojson": true } ], "_help": [ { "page": "ae", "title": "Simulated adverse events for patients receiving two study agents.", "topics": [ "ae" ] }, { "page": "ae_timeline_plot", "title": "Outputs related adverse event timeline plots including just system organ class (AE category), or system organ class and lowest level term (AE detail). This function can fit up to 5 different attributions. Modify width, height and scale parameters in ggsave() to customize fit for large plot.", "topics": [ "ae_timeline_plot" ] }, { "page": "as_numeric_parse", "title": "Modification of the as.numeric function that prints entries that fail to parse as a message", "topics": [ "as_numeric_parse" ] }, { "page": "caterpillar_plot", "title": "Caterpillar plot. Useful for plotting random effects from hierarchical models, such as MCMCglmm::MCMCglmm() object, that have binary outcome.", "topics": [ "caterpillar_plot" ] }, { "page": "covsum_nested", "title": "Nested version of reportRmd covsum()", "topics": [ "covsum_nested" ] }, { "page": "demography", "title": "Simulated demography for patients.", "topics": [ "demography" ] }, { "page": "drug1_admin", "title": "Simulated study agent 1 for patients.", "topics": [ "drug1_admin" ] }, { "page": "drug2_admin", "title": "Simulated study agent 2 for patients.", "topics": [ "drug2_admin" ] }, { "page": "dsmb_ccru", "title": "Outputs the three DSMB-CCRU AE summary tables in Excel format per UHN template", "topics": [ "dsmb_ccru" ] }, { "page": "dsmb_ddp", "title": "Outputs the DSMB-DDP AE summary tables in Excel format per UHN template", "topics": [ "dsmb_ddp" ] }, { "page": "enrollment", "title": "Enrollment data Simulated enrollment for patients.", "topics": [ "enrollment" ] }, { "page": "ineligibility", "title": "Simulated ineligibility for patients.", "topics": [ "ineligibility" ] }, { "page": "nice_mcmcglmm", "title": "Nice table of model output from MCMCglmm::MCMCglmm()", "topics": [ "nice_mcmcglmm" ] }, { "page": "nice_mcmcglmm_icc", "title": "Nice table of intraclass correlation coefficients from MCMCglmm::MCMCglmm() model output", "topics": [ "nice_mcmcglmm_icc" ] }, { "page": "redcap_data_out", "title": "Combines exported REDCap raw and label .csv files together with data dictionary. 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