{ "_id": "6a101657acfb0bcc41c8459c", "Package": "EpiReport", "Type": "Package", "Title": "Epidemiological Report", "Version": "1.0.4", "Date": "2025-04-18", "Authors@R": "c( \nperson( given = \"Lore\", family = \"Merdrignac\",\nrole = c(\"aut\", \"ctr\", \"cre\"), email = \"l.merdrignac@epiconcept.fr\", comment = \"Author of the package and original code\"),\nperson( given = \"Tommi\", family = \"Karki\",\nrole = c(\"aut\", \"fnd\"), email = \"tommi.karki@ecdc.europa.eu\"),\nperson( given = \"Esther\", family = \"Kissling\",\nrole = c(\"aut\", \"ctr\"), email = \"e.kissling@epiconcept.fr\"),\nperson( given = \"Joana\", family = \"Gomes Dias\",\nrole = c(\"aut\", \"fnd\"), email = \"joana.gomes.dias@ecdc.europa.eu\", comment = \"Project manager\"))", "Description": "Drafting an epidemiological report in 'Microsoft Word'\nformat for a given disease, similar to the Annual\nEpidemiological Reports published by the European Centre for\nDisease Prevention and Control. Through standalone functions,\nit is specifically designed to generate each disease specific\noutput presented in these reports and includes: - Table with\nthe distribution of cases by Member State over the last five\nyears; - Seasonality plot with the distribution of cases at the\nEuropean Union / European Economic Area level, by month, over\nthe past five years; - Trend plot with the trend and number of\ncases at the European Union / European Economic Area level, by\nmonth, over the past five years; - Age and gender bar graph\nwith the distribution of cases at the European Union / European\nEconomic Area level. Two types of datasets can be used: - The\ndefault dataset of dengue 2015-2019 data; - Any dataset\nspecified as described in the vignette.", "License": "EUPL", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "7.3.2", "VignetteBuilder": "knitr", "URL": "https://www.ecdc.europa.eu/en/publications-data/monitoring/all-annual-epidemiological-reports\nhttps://epiconcept-paris.github.io/EpiReport/", "Config/pak/sysreqs": "libcairo2-dev cmake libfontconfig1-dev\nlibfreetype6-dev libfribidi-dev make libharfbuzz-dev libicu-dev\nlibjpeg-dev libpng-dev libtiff-dev libuv1-dev libwebp-dev\nlibxml2-dev libssl-dev", "Repository": "https://epiconcept-paris.r-universe.dev", "Date/Publication": "2025-05-02 08:42:22 UTC", "RemoteUrl": "https://github.com/epiconcept-paris/epireport", "RemoteRef": "HEAD", "RemoteSha": "4e21734ea64a87531782880d951d1d52c0a29b60", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-14 08:38:54 UTC", "User": "root" }, "Author": "Lore Merdrignac [aut, ctr, cre] (Author of the package and original\ncode),\nTommi Karki [aut, fnd],\nEsther Kissling [aut, ctr],\nJoana Gomes Dias [aut, fnd] (Project manager)", "Maintainer": "Lore Merdrignac ", "MD5sum": "c85ff89bdcd709ca9b6d250696c776e5", "_user": "epiconcept-paris", "_type": "src", "_file": "EpiReport_1.0.4.tar.gz", "_fileid": "aa222794c96277d4668f73c3f2e17f5fd0e7df6fcf265e67c5c56ade6d7e3a46", "_filesize": 4145536, "_sha256": "aa222794c96277d4668f73c3f2e17f5fd0e7df6fcf265e67c5c56ade6d7e3a46", "_created": "2026-05-14T08:38:54.000Z", "_published": "2026-05-22T08:39:51.285Z", "_distro": "noble", "_jobs": [ { "job": 77345376783, "time": 153, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "6990534812" }, { "job": 77345377171, "time": 150, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "6990534111" }, { "job": 77345377049, "time": 115, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7010903425" }, { "job": 77345376988, 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<37700893+loremerdrignac@users.noreply.github.com>", "committer": "GitHub ", "message": "Merge pull request #9 from Epiconcept-Paris/dev\n\nPkgdown deployment v1.0.4", "time": 1746175342 }, "_maintainer": { "name": "Lore Merdrignac", "email": "l.merdrignac@epiconcept.fr", "login": "loremerdrignac", "uuid": 37700893 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "officer", "role": "Imports" }, { "package": "flextable", "role": "Imports" }, { "package": "zoo", "role": "Imports" }, { "package": "png", "role": "Imports" }, { "package": "dplyr", "role": "Imports" }, { "package": "tidyr", "role": "Imports" }, { "package": "tidyselect", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "knitr", "version": ">= 1.20", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "epiconcept-paris", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 1, 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"rows": 32, "table": true, "tojson": true }, { "name": "SALM2016", "title": "Dataset including Salmonellosis data for 2012-2016", "object": "SALM2016", "class": [ "data.frame" ], "fields": [ "HealthTopicCode", "MeasureLabel", "MeasurePopulation", "MeasureCode", "MeasureId", "MeasureType", "TimeUnit", "GeoLevel", "TimeCode", "GeoCode", "XValue", "XLabel", "YValue", "YLabel", "ZValue", "N", "NMissing", "NLowerResolution" ], "rows": 60775, "table": true, "tojson": true } ], "_help": [ { "page": "AERparams", "title": "Dataset describing the parameters for the epidemiological report production", "topics": [ "AERparams" ] }, { "page": "body_replace_gg_at_bkm", "title": "Replace a plot at a bookmark location", "topics": [ "body_replace_gg_at_bkm" ] }, { "page": "cleanECDCTable", "title": "Cleaning the final table", "topics": [ "cleanECDCTable" ] }, { "page": "cleanMeasureCode", "title": "Clean the MeasureCode variable", "topics": [ "cleanMeasureCode" ] }, { "page": "DENGUE2019", "title": "Dataset including Dengue data for 2015-2019", "topics": [ "DENGUE2019" ] }, { "page": "EcdcColors", "title": "Colour palettes following the March 2018 ECDC guidelines for presentation of surveillance data", "topics": [ "EcdcColors" ] }, { "page": "filterDisease", "title": "Filter disease parameters", "topics": [ "filterDisease" ] }, { "page": "getAER", "title": "Get full disease-specific epidemiological report", "topics": [ "getAER" ] }, { "page": "getAgeGender", "title": "Get disease-specific age and gender bar graph", "topics": [ "getAgeGender" ] }, { "page": "getMap", "title": "Get disease-specific map: distribution of cases by Member State", "topics": [ "getMap" ] }, { "page": "getSeason", "title": "Get disease-specific seasonality graph: distribution of cases by month", "topics": [ "getSeason" ] }, { "page": "getTableByMS", "title": "Get disease-specific table: distribution of cases by Member State (GeoCode)", "topics": [ "getTableByMS" ] }, { "page": "getTemplate", "title": "Get 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for Disease Prevention and Control (ECDC)", "engine": "knitr::rmarkdown", "headings": [ "Description", "Background", "1. Datasets to be used in the Epidemiological Report package", "1.1. Disease dataset specification", "1.2. Report parameters dataset specification", "1.3. Member States correspondence table dataset", "2. How to generate the Epidemiological Report in Microsoft Word format", "2.1. External disease dataset", "2.2. Word template", "2.3. Word bookmarks", "3. How to generate each epidemiological outputs independently", "3.1. Table: distribution of cases by Member State", "3.2. Seasonality plot: distribution of cases by month", "3.3. Trend plot: trend and number of cases by month", "3.4. Maps: distribution of cases by Member State", "3.5. 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