41:null 42:["$","title",null,{"children":"SARS-CoV-2 incidence | Augustus Kling | Observable"}] 48:[] 46:{"id":"1a13627e73037ee2","slug":"sars-cov-2-incidence","title":"SARS-CoV-2 incidence","thumbnail":"903afb6bfbde54f6b1a25d509717caefad6449b5700e8c677e7200a15a2942ca","access_level":"public","create_time":"$D2020-05-19T18:47:18.880Z","update_time":"$D2020-06-22T17:46:55.515Z","view_time":null,"first_public_time":"$D2020-05-19T20:36:52.077Z","has_unpublished_edits":null,"fork":false,"stars":0,"starred":false,"owner":{"type":"team","id":"28e27a495b2437b4","login":"augustuskling","name":"Augustus Kling","avatar_url":"https://avatars-next.observableusercontent.com/0974177a406c4ca853d5e3838ae5596154e3c39a18195a5043a0109fa8c2f3cc","tier":"starter_2024","bio":"","following":false},"version":121,"publish_version":121,"role":null,"authored":false,"authors":[{"type":"individual","id":"bf5a73194bb2f919","login":"augustuskling","name":"Augustus Kling","avatar_url":"https://avatars-next.observableusercontent.com/0974177a406c4ca853d5e3838ae5596154e3c39a18195a5043a0109fa8c2f3cc","tier":null,"bio":"","following":false}],"members":[{"type":"individual","id":"bf5a73194bb2f919","login":"augustuskling","name":"Augustus Kling","avatar_url":"https://avatars-next.observableusercontent.com/0974177a406c4ca853d5e3838ae5596154e3c39a18195a5043a0109fa8c2f3cc","tier":null,"role":"editor"}],"comments":[],"custom_thumbnail":false,"trashed":false,"lapsed":null,"subscribed":null,"forks":0,"collection":null,"type":"notebook","body":{"titling":"auto","title":"SARS-CoV-2 incidence","cells":[{"id":0,"value":"md`# SARS-CoV-2 incidence\nShows the incidence of Corona cases (SARS-CoV-2 only) within the last days, cumulatively over 7 days, per 100 000 inhabitants.\n\nData by European Centre for Disease Prevention and Control\nSource: https://www.ecdc.europa.eu/en/publications-data/download-todays-data-geographic-distribution-covid-19-cases-worldwide`","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","tool":"$undefined","providerMetadata":"$undefined","attachments":"$undefined","output":"$undefined","database":"$undefined"},{"id":88,"value":"viewof filter = html``","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","tool":"$undefined","providerMetadata":"$undefined","attachments":"$undefined","output":"$undefined","database":"$undefined"},{"id":34,"value":"incidenceTable = {\n const table = document.createElement('div');\n table.className = 'incidences';\n\n for (const [territory, list] of dataByTerritory.entries()) {\n const row = document.createElement('section');\n \n const name = document.createElement('h1');\n name.appendChild(document.createTextNode(territory));\n row.appendChild(name);\n \n const graphCell = document.createElement('div');\n makeIncidenceGraph(list.slice(-1)[0], 60, 7, 100000).then(graph => graphCell.appendChild(graph));\n row.appendChild(graphCell);\n \n const currentIncident = document.createElement('p');\n currentIncident.appendChild(document.createTextNode('Currently: ' + incidence(list.slice(-1)[0], 7, 100000).toFixed(2)));\n row.appendChild(currentIncident);\n \n table.appendChild(row);\n }\n return table;\n}","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","tool":"$undefined","providerMetadata":"$undefined","attachments":"$undefined","output":"$undefined","database":"$undefined"},{"id":64,"value":"md`# Data`","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","tool":"$undefined","providerMetadata":"$undefined","attachments":"$undefined","output":"$undefined","database":"$undefined"},{"id":2,"value":"raw = fetch('https://cors-anywhere.herokuapp.com/'+encodeURI('https://opendata.ecdc.europa.eu/covid19/casedistribution/json/')).then(response => response.json())","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","tool":"$undefined","providerMetadata":"$undefined","attachments":"$undefined","output":"$undefined","database":"$undefined"},{"id":68,"value":"md`# Code and libraries`","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","tool":"$undefined","providerMetadata":"$undefined","attachments":"$undefined","output":"$undefined","database":"$undefined"},{"id":10,"value":"dataByTerritory = {\n const data = raw.records.filter(r => r.continentExp===filter || filter==='All').map(r => {\n r.countriesAndTerritories = r.countriesAndTerritories.replace(/_/g, ' ');\n r.date = moment(r.dateRep, 'DD/MM/YYYY');\n r.cases = parseInt(r.cases, 10);\n r.deaths = parseInt(r.deaths, 10);\n r.popData2018 = parseInt(r.popData2018, 10);\n return r;\n });\n \n const byTerritory = new Map();\n for(const d of data) {\n const list = byTerritory.get(d.countriesAndTerritories) || [];\n list.push(d);\n byTerritory.set(d.countriesAndTerritories, list);\n }\n \n const byTerritorySorted = new Map();\n for(const territory of Array.from(byTerritory.keys()).sort((a, b) => a.localeCompare(b))) {\n const list = byTerritory.get(territory);\n list.sort((a, b) => a.date - b.date);\n byTerritorySorted.set(territory, list);\n }\n return byTerritorySorted;\n}","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","tool":"$undefined","providerMetadata":"$undefined","attachments":"$undefined","output":"$undefined","database":"$undefined"},{"id":16,"value":"incidence = (sample, days, scale) => {\n const list = dataByTerritory.get(sample.countriesAndTerritories);\n const index = list.indexOf(sample);\n if (index < days) {\n return Number.NaN;\n } else {\n const lastUntilSample = list.slice(index - days + 1, index + 1);\n const sum = lastUntilSample.reduce((acc, current) => acc + current.cases, 0);\n return sum / sample.popData2019 * scale;\n }\n}","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","tool":"$undefined","providerMetadata":"$undefined","attachments":"$undefined","output":"$undefined","database":"$undefined"},{"id":45,"value":"makeIncidenceGraph = async (sample, sampleCount, cumulationDays, scale) => {\n const list = dataByTerritory.get(sample.countriesAndTerritories).slice(- sampleCount);\n const lowBoundary = list[0].date;\n const data = list.map(s => {\n return {\n incidence: incidence(s, cumulationDays, scale),\n date: s.date\n };\n });\n const x = vl.x().axis({ title: null }).scale({ domain: [lowBoundary, moment()] }).fieldT('date');\n const y = vl.y().axis({ title: null, tickCount: 3 }).fieldQ('incidence');\n \n const line = vl.mark({ type: 'line', clip: true })\n .width('container')\n .data(data)\n .encode(x, y);\n const point = vl.mark({ type: 'point', size: 8, clip: true })\n .width('container')\n .data(data)\n .encode(x, y);\n const graphContainer = await vl.layer(line, point)\n .autosize({type: 'fit', contains: 'padding'})\n .height(70)\n .background('transparent')\n .view({ fill: 'white' })\n .render();\n return graphContainer;\n}","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","tool":"$undefined","providerMetadata":"$undefined","attachments":"$undefined","output":"$undefined","database":"$undefined"},{"id":78,"value":"html``","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","tool":"$undefined","providerMetadata":"$undefined","attachments":"$undefined","output":"$undefined","database":"$undefined"},{"id":8,"value":"moment = require('moment')","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","tool":"$undefined","providerMetadata":"$undefined","attachments":"$undefined","output":"$undefined","database":"$undefined"},{"id":50,"value":"import {vl} from '@vega/vega-lite-api'","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","tool":"$undefined","providerMetadata":"$undefined","attachments":"$undefined","output":"$undefined","database":"$undefined"}],"files":"$W48","stdlib":"1"}} 47:"$46:body"