dataviz & research
Andy's Walgreens COVID-19 Tracker TrackerBelgium Vaccination Tracker - Progress of the vaccination campaignVaccination against covid-19 in France500,000 COVID-19 DeathsCovid-19 vaccinations: BubblesTime Spiral with a COVID DemoCOVID MasksGrid Cartogram component with live COVID demos (plus a MapEditor)The US COVID SyringeCOVID-19 DKCOVID-19 World Community Mobility Report by GoogleCOVID 19Chicago COVID ZIP SparklinesThe COVID Syringeభారతదేశంలో కోవిడ్-19SVG DataGrid with many features and a live COVID Dashboard demoThe spread of Covid-19 in New MexicoHeatmap of COVID-19 Confirmed Cases by Age over Time in JapanThe CoViD-19 ReportCovid19 WorldwideMassachusetts Coronavirus Cases by TownChoropleth map about Covid19 in FranceWell ordered coronavirus heatmaps for US and the WorldCOVID-19 Racial/Ethnic Mortality AnalysisProPublica's COVID Arrow MapClustering students to slow virus spread inside schoolsCOVID-19 in the USAWho Is Wearing Masks in the U.S.Covid-19 Viz RoundupCoronavirus StatsThe Covid-19 Crisis' Impact on the Number of US Flight PassengersCOVID-19 Daily New CasesCOVID-19 CasesCOVID–19 Bubble Chart with D3 RenderCoronavirus Deaths by Race / EthnicityHow many SARS-CoV-2 tests are we running in the U.S.?COVID-19 Onset vs. ConfirmationPeaks in confirmed daily deaths due to COVID-19 so farCOVID-19 in the U.S.Recreating John Burn-Murdoch’s Coronavirus trackerTracking COVID-19 Cases in VietnamCOVID-19 in NYC by Zip Code & Incomexkcd COVID-19 spread sketchCOVID-19's deaths in EuropeCovid-19 (corona virus) deaths per 1,000,000 peopleCOVID-19 Bubble map or spike map? (Twitter debate)A Timeline of Shelter-in-PlaceWhere’s that $2 trillion going?Estimating SARS-COV-2 infectionsCODAVIM - CountySARS-CoV-2 Epi CurveCOVID-19 Curves (U.S.)COVID-19 Cases by CountyCOVID-19 world growth rateA graphical experiment of exponential spreadCOVID-19 by US countyCOVID-19 Confirmed vs. New cases"Live" Logistic Coronavirus Death CounterInfografiche: COVID-19 in ItaliaCoronavirus (COVID-19) GlobeBar Chart Race, COVID-19 outbreak Worldwide to 24th March 2020US Coronavirus testing by statesUnited States Coronavirus Daily Cases Map (COVID-19)COVID-19 Numbers by State, Side by SideRecreating NYT U.S. Cases MapCOVID-19 in Washington stateCOVID-19 outbreak in maps and chartsCOVID-19 Spreading trendsRestaurants during COVID-19 social distancingCOVID-19 Countries Trajectories in 3DStates that aren't reporting aspects of their COVID-19 testing processNextstrain Prototyping - Issue 817Reviewing COVID-19 SARS-CoV-2 preprints from medRxiv and bioRxivCoronavirus worldwide evolutionCovid-19 New Cases PunchcardCovid-19 cases per district in Germany.COVID-19 Cases, Deaths, and Recoveries (Select Country)Quarantine NowEmissions in WuhanCOVID-19(nCOV-2019) Outbreak in S.KoreaMovement of population between provinces in 2019-nCoVComparing COVID-19 GrowthCovid-19 derived chartCoronavirus Trends (COVID-19)Netherlands Coronavirus Daily Cases Map (COVID-19)Map and timeline of Corona outbreakSARS-CoV-2 Phylogenetic TreeCoronavirus data (covid-19)Visualizing the Logic of Exponential Viral SpreadItaly Coronavirus Daily Cases Map (COVID-19)COVID-19 Fatality Rate
Visualizing the Network Meta-Analysis of Covid-19 Studies
//chart_treatment_by_severity_prevention = generate_research_evolution_treatment_type(
// "Research evolution for treatment types : prevention",
// d => d["Study aim"] === "Prevention"
//)
// No more relevant as
//chart_treatment_by_severity_post = generate_research_evolution_treatment_type(
// "Research evolution for treatment types : post treatment",
// d => d["Study aim"] === "Post treatment"
//)
data_agg_authors = d3.nest().key(function(d) { return d["First author"]; }).rollup(function(values) { return values.length }).entries(data_agg.map(d => d.value))
data_agg
data_agg_treatment1 = get_data_agg_field("Treatment type")
data_agg_treatment1
data_agg.map(d => d.value.values)
import {vl} from '@vega/vega-lite-api'
data
data_agg
data_agg.map(function(d, i) { return d.value.values.map(e => e["Treatment type"]) })
html`<img src="https://covid-nma.com/wp-content/uploads/2020/04/network-mild-070420-800x450.jpg" width=500>
<br>
`
html`<img src="https://covid-nma.com/wp-content/uploads/2020/04/network-severe-070420-800x450.jpg" width=500>
<br>
`
html`<img src="https://covid-nma.com/wp-content/uploads/2020/04/network-heterogeneous-070420-800x450.jpg" width=600>
<br>
`
html`<img src="https://covid-nma.com/wp-content/uploads/2020/04/Network-europe-070420-800x450.jpg" width=600>
<br>`
html`<img src="https://covid-nma.com/wp-content/uploads/2020/04/Rplot-treatment-type-eu_page-0001-800x566.jpg" width=600>
<br>
`
d3 = require("d3@5")
vegalite = require("@observablehq/vega-lite@0.2")
data = d3.csvParse(await FileAttachment("Database 080420_140420.csv").text())
data_agg = d3.nest().key(function(d) { return d["Trial ID"]; }).rollup(function(values) {
return {values: values,
"Recruitment status": values[0]["Recruitment status"],
"Countries": values[0]["Countries"],
"Center": values[0]["Center"],
"First author": values[0]["First author"],
"Publication date online": values[0]["Publication date online"],
"Trial registration number": values[0]["Trial registration number"],
"Funding": values[0]["Funding"],
"Severity": values[0]["Severity scale"],
"Study design": values[0]["Study design"],
"registration_code": values[0]["Trial registration number"].slice(0, 3)
}
}).entries(data);
Treatment_type1 = new Set(data.map(d => d["Treatment type"]))
Treatment_type1_list = Array.from(Treatment_type1)
Array.from(Treatment_type1).map(d => 0)
md`Using [UpSets](https://observablehq.com/@sgratzl/upset-observable-example?collection=@sgratzl/upset-visualization-technique) to visualize co-occurences`
all_co_binary = data_agg.map(function(d, i) {
let a = Array.from(Treatment_type1).map(d => 0)
d.value.values.forEach(function(e) {
i = Treatment_type1_list.indexOf(e["Treatment type1"])
a[i] = 1
})
return a
})
// EXPERIMENTAL
// Only with a dataset otherwise too many intersections
// We need to reduce the number of categories
all_co_data = data_agg.filter((d, i) => i < 30).map(function(d, i) {
let sets = []
d.value.values.forEach(function(e) {
// if(e["Treatment type1"] != "*")
sets.push(e["Treatment type1"])
})
let a = {}
a["name"] = d.value["Trial registration number"]
a["Trial registration number"] = d.value["Trial registration number"]
a["First author"] = d.value["First author"]
a["Publication date online"] = d.value["Publication date online"]
a["sets"] = sets
return a
})
sets = extractSets(all_co_data)
intersections = generateIntersections(sets).sort(
(a, b) => b.cardinality - a.cardinality
)
intersections
viewof selection = UpSet(sets, intersections)
printTable(selection ? selection.elems.map(d => d): "")
selection
bycontinent = new Map(d3.nest().key(d => d).rollup(v => v.length).entries(Array.from(countriesIndex).map(d => Array.from(new Set(d[1].map(d => continents.get(d))))).flat()).map(d => [d.key, d.value]))
import {
checkbox,
slider,
button,
text,
select,
autoSelect,
radio
} from "@jashkenas/inputs"
import {printTable} from '@uwdata/data-utilities'
// https://observablehq.com/d/3c709ffbafcdb388
import {
map,
viewof textFilter,
viewof recruitmentFilter,
viewof zoomType,
countriesIndex,
continents
} from "3c709ffbafcdb388"
md`Other Viz
https://observablehq.com/d/8215857ffae42ded
`
stackedBar = vl.markBar()
.data(data_agg.map(d => d.value))
.encode(
vl.x().fieldO("Countries"),//.timeUnit("utcmonth"),
vl.y().count(), // .stack("normalize").axis({ format: "%" }),
vl.color().fieldN("continent") // .scale({ range: weatherColors })
)
.render()
// Without Date filter
chart_date_strip = embed({
data: {values: data},
mark: "tick",
width: width/2,
encoding: {
x: {field: "Registration date", type: "temporal"}
}
})
embed = require("vega-embed@6")
vegalite({
data: {values: data.filter(d => (new Date(d["Registration date"]) > new Date("2019")) )},
mark: "area",
width: width/2,
encoding: {
y: {aggregate: "count", field: "Treatment type1", type: "quantitative"},
x: {field: "Registration date", type: "temporal"},
color: {field: "Treatment type", "type":"nominal", "scale":{"scheme": "category20b"}}
},
})
md`OLD CHARTS`
html`<img src="https://covid-nma.com/wp-content/uploads/2020/04/Rplot-countries_page-0001-800x566.jpg" width=200>`
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