{ "_id": "6a22842acd65a98ecbd52ae6", "Package": "epitraxr", "Title": "Manipulate 'EpiTrax' Data and Generate Reports", "Version": "0.5.1", "Authors@R": "c(\nperson(\"Andrew\", \"Pulsipher\", , \"pulsipher.a@gmail.com\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-0773-3210\")),\nperson(\"Nate\", \"Lanza\", , \"natelanzadevelopment@gmail.com\", role = c(\"aut\", \"ctb\")),\nperson(\"Madeline\", \"George\", role = \"ctb\"),\nperson(\"Zachary\", \"Heuscher\", role = \"ctb\"),\nperson(\"Centers for Disease Control and Prevention's Center for Forecasting and Outbreak Analytics\", role = \"fnd\",\ncomment = \"Cooperative agreement CDC-RFA-FT-23-0069\")\n)", "Description": "A fast, flexible tool for generating disease surveillance\nreports from data exported from 'EpiTrax', a central repository\nfor epidemiological data used by public health officials. It\nprovides functions to manipulate 'EpiTrax' datasets, tailor\nreports to internal or public use, and export reports in CSV,\nExcel 'xlsx', or PDF formats.", "License": "MIT + file LICENSE", "URL": "https://epiforesite.github.io/epitraxr/,\nhttps://github.com/EpiForeSITE/epitraxr", "BugReports": "https://github.com/EpiForeSITE/epitraxr/issues", "VignetteBuilder": "knitr", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.2", "Config/pak/sysreqs": "zlib1g-dev", "Repository": "https://epiforesite.r-universe.dev", "Date/Publication": "2025-11-07 06:38:44 UTC", "RemoteUrl": "https://github.com/EpiForeSITE/epitraxr", "RemoteRef": "HEAD", "RemoteSha": "3c5eca76888bbeb16a413a9d2a6c30ebb7ca5836", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-05 08:06:24 UTC", "User": "root" }, "Author": "Andrew Pulsipher [aut, cre] (ORCID:\n),\nNate Lanza [aut, ctb],\nMadeline George [ctb],\nZachary Heuscher [ctb],\nCenters for Disease Control and Prevention's Center for Forecasting and\nOutbreak Analytics [fnd] (Cooperative agreement CDC-RFA-FT-23-0069)", "Maintainer": "Andrew Pulsipher ", "MD5sum": "2b5136c6f7c627be2daffb521da011fc", "_user": "epiforesite", "_type": "src", "_file": "epitraxr_0.5.1.tar.gz", "_fileid": "db475d6d5267c1b1348af29827abdeda96b3e0f3789f7588c07951dd2b81f058", "_filesize": 472675, "_sha256": "db475d6d5267c1b1348af29827abdeda96b3e0f3789f7588c07951dd2b81f058", "_created": "2026-06-05T08:06:24.000Z", "_published": "2026-06-05T08:09:14.272Z", "_distro": "noble", "_jobs": [ { "job": 79688840978, "time": 138, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7431837276" }, { "job": 79688840985, "time": 135, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7431836450" }, { "job": 79688841028, "time": 101, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7431826433" }, { "job": 79688841038, "time": 87, "config": "macos-release-arm64", "r": "4.6.0", "check": 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public-name conversion in create_report_grouped_stats() (#124)\n\n* Enable public-name conversion in create_report_grouped_stats()\n\n* Bump version number", "time": 1762497524 }, "_maintainer": { "name": "Andrew Pulsipher", "email": "pulsipher.a@gmail.com", "login": "apulsipher", "description": "", "uuid": 45372570, "orcid": "0000-0002-0773-3210" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.1.0", "role": "Depends" }, { "package": "lubridate", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "writexl", "role": "Imports" }, { "package": "yaml", "role": "Imports" }, { "package": "DT", "role": "Suggests" }, { "package": "kableExtra", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "readxl", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "shiny", "role": "Suggests" }, { "package": "shinyjs", "role": "Suggests" }, { 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"_stars": 3, "_contributors": [ { "user": "apulsipher", "count": 167, "uuid": 45372570 }, { "user": "copilot", "count": 4, "uuid": 198982749 }, { "user": "natelanza", "count": 2, "uuid": 58234814 } ], "_userbio": { "uuid": 158560900, "type": "organization", "name": "ForeSITE", "description": "A collection of epidemic modeling and forecasting tools for ForeSITE, part of the CDC-funded InsightNet" }, "_downloads": { "count": 455, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/epitraxr" }, "_devurl": "https://github.com/epiforesite/epitraxr", "_pkgdown": "https://epiforesite.github.io/epitraxr/", "_searchresults": 8, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/epitraxr.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/epiforesite/epitraxr", "_realowner": "epiforesite", "_cranurl": true, "_releases": [ { "version": "0.5.0", "date": "2025-09-14" } ], "_exports": [ "clear_old_reports", "compute_trend", "convert_counts_to_rate", "create_epitrax_from_file", "create_filesystem", "create_public_report_combined_month_ytd", "create_public_report_month", "create_public_report_ytd", "create_report_annual_counts", "create_report_grouped_stats", "create_report_monthly_avgs", "create_report_monthly_counts", "create_report_monthly_medians", "create_report_ytd_counts", "create_report_ytd_medians", "epitrax_ireport_annual_counts", "epitrax_ireport_monthly_avgs", "epitrax_ireport_monthly_counts_all_yrs", "epitrax_ireport_ytd_counts_for_month", "epitrax_preport_combined_month_ytd", "epitrax_preport_month_crosssections", "epitrax_preport_ytd_rates", "epitrax_report_grouped_stats", "epitrax_report_monthly_medians", "epitrax_report_ytd_medians", "epitrax_set_config_from_file", "epitrax_set_config_from_list", "epitrax_set_report_diseases", "epitrax_write_csvs", "epitrax_write_pdf_grouped_stats", "epitrax_write_pdf_public_reports", "epitrax_write_xlsxs", "epitraxr_config", "format_epitrax_data", "get_month_counts", "get_report_config", "get_report_diseases", "get_report_diseases_internal", "get_report_diseases_public", "get_yrs", "mmwr_week_to_month", "read_epitrax_data", "reshape_annual_wide", "reshape_monthly_wide", "run_app", "set_na_0", "setup_epitrax", "setup_filesystem", "standardize_report_diseases", "validate_config", "validate_data", "validate_epitrax", "validate_filesystem", "write_report_csv", "write_report_pdf", "write_report_pdf_grouped", "write_report_xlsx" ], "_help": [ { "page": "clear_old_reports", "title": "Clear out old reports before generating new ones.", "topics": [ "clear_old_reports" ] }, { "page": "compute_trend", "title": "Compute the report trend", "topics": [ "compute_trend" ] }, { "page": "convert_counts_to_rate", "title": "Convert case counts to rate", "topics": [ "convert_counts_to_rate" ] }, { "page": "create_epitrax_from_file", "title": "Create an EpiTrax object from data file", "topics": [ "create_epitrax_from_file" ] }, { "page": "create_filesystem", "title": "Create filesystem", "topics": [ "create_filesystem" ] }, { "page": "create_public_report_combined_month_ytd", "title": "Create combined monthly and year-to-date public report", "topics": [ "create_public_report_combined_month_ytd" ] }, { "page": "create_public_report_month", "title": "Create a monthly cross-section public report", "topics": [ "create_public_report_month" ] }, { "page": "create_public_report_ytd", "title": "Create a YTD public report", "topics": [ "create_public_report_ytd" ] }, { "page": "create_report_annual_counts", "title": "Create annual counts report", "topics": [ "create_report_annual_counts" ] }, { "page": "create_report_grouped_stats", "title": "Create grouped disease statistics report", "topics": [ "create_report_grouped_stats" ] }, { "page": "create_report_monthly_avgs", "title": "Create monthly averages report", "topics": [ "create_report_monthly_avgs" ] }, { "page": "create_report_monthly_counts", "title": "Create monthly counts report", "topics": [ "create_report_monthly_counts" ] }, { "page": "create_report_monthly_medians", "title": "Create monthly medians report", "topics": [ "create_report_monthly_medians" ] }, { "page": "create_report_ytd_counts", "title": "Create year-to-date (YTD) counts report", "topics": [ "create_report_ytd_counts" ] }, { "page": "create_report_ytd_medians", "title": "Create year-to-date (YTD) medians report", "topics": [ "create_report_ytd_medians" ] }, { "page": "epitrax_ireport_annual_counts", "title": "Create annual counts internal report from an EpiTrax object", "topics": [ "epitrax_ireport_annual_counts" ] }, { "page": "epitrax_ireport_monthly_avgs", "title": "Create monthly averages internal report from an EpiTrax object", "topics": [ "epitrax_ireport_monthly_avgs" ] }, { "page": "epitrax_ireport_monthly_counts_all_yrs", "title": "Create monthly counts internal report for all years from an EpiTrax object", "topics": [ "epitrax_ireport_monthly_counts_all_yrs" ] }, { "page": "epitrax_ireport_ytd_counts_for_month", "title": "Create year-to-date (YTD) counts internal report for a given month from an EpiTrax object", "topics": [ "epitrax_ireport_ytd_counts_for_month" ] }, { "page": "epitrax_preport_combined_month_ytd", "title": "Create combined monthly/YTD stats public report from an EpiTrax object", "topics": [ "epitrax_preport_combined_month_ytd" ] }, { "page": "epitrax_preport_month_crosssections", "title": "Create monthly cross-section reports from an EpiTrax object", "topics": [ "epitrax_preport_month_crosssections" ] }, { "page": "epitrax_preport_ytd_rates", "title": "Create year-to-date (YTD) rates public report from an EpiTrax object", "topics": [ "epitrax_preport_ytd_rates" ] }, { "page": "epitrax_report_grouped_stats", "title": "Create grouped disease statistics report from an EpiTrax object", "topics": [ "epitrax_report_grouped_stats" ] }, { "page": "epitrax_report_monthly_medians", "title": "Create monthly medians report from an EpiTrax object", "topics": [ "epitrax_report_monthly_medians" ] }, { "page": "epitrax_report_ytd_medians", "title": "Create year-to-date (YTD) medians report from an EpiTrax object", "topics": [ "epitrax_report_ytd_medians" ] }, { "page": "epitrax_set_config_from_file", "title": "Set report configuration of EpiTrax object from config file", "topics": [ "epitrax_set_config_from_file" ] }, { "page": "epitrax_set_config_from_list", "title": "Set report configuration of EpiTrax object from list", "topics": [ "epitrax_set_config_from_list" ] }, { "page": "epitrax_set_report_diseases", "title": "Set report diseases in EpiTrax object", "topics": [ "epitrax_set_report_diseases" ] }, { "page": "epitrax_write_csvs", "title": "Write reports from EpiTrax object to CSV files", "topics": [ "epitrax_write_csvs" ] }, { "page": "epitrax_write_pdf_grouped_stats", "title": "Write grouped statistics reports from EpiTrax object to PDF files", "topics": [ "epitrax_write_pdf_grouped_stats" ] }, { "page": "epitrax_write_pdf_public_reports", "title": "Create formatted PDF report of monthly cross-section reports", "topics": [ "epitrax_write_pdf_public_reports" ] }, { "page": "epitrax_write_xlsxs", "title": "Write reports from EpiTrax object to Excel files", "topics": [ "epitrax_write_xlsxs" ] }, { "page": "epitraxr_config", "title": "Create epitraxr config object", "topics": [ "epitraxr_config" ] }, { "page": "format_epitrax_data", "title": "Format EpiTrax data for report generation", "topics": [ "format_epitrax_data" ] }, { "page": "get_month_counts", "title": "Get monthly counts for each disease", "topics": [ "get_month_counts" ] }, { "page": "get_report_config", "title": "Read in the report config YAML file", "topics": [ "get_report_config" ] }, { "page": "get_report_diseases", "title": "Get both internal and public disease lists", "topics": [ "get_report_diseases" ] }, { "page": "get_report_diseases_internal", "title": "Get the internal disease list", "topics": [ "get_report_diseases_internal" ] }, { "page": "get_report_diseases_public", "title": "Get the public disease list", "topics": [ "get_report_diseases_public" ] }, { "page": "get_yrs", "title": "Get unique years from the data", "topics": [ "get_yrs" ] }, { "page": "mmwr_week_to_month", "title": "Convert MMWR week to calendar month", "topics": [ "mmwr_week_to_month" ] }, { "page": "read_epitrax_data", "title": "Read in EpiTrax data", "topics": [ "read_epitrax_data" ] }, { "page": "reshape_annual_wide", "title": "Reshape data with each year as a separate column", "topics": [ "reshape_annual_wide" ] }, { "page": "reshape_monthly_wide", "title": "Reshape data with each month as a separate column", "topics": [ "reshape_monthly_wide" ] }, { "page": "run_app", "title": "Launch the epitraxr Shiny Application", "topics": [ "run_app" ] }, { "page": "set_na_0", "title": "Set NA 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