diff --git a/README.md b/README.md
index 32c67321b91393dfd61501eb76a82b9a2dbff57b..4884c2d33fd7a4f5c1a06a4d07c7a26b41fef58c 100644
--- a/README.md
+++ b/README.md
@@ -24,6 +24,32 @@ and someone will be able to help out.
The environment image allows you to work in Python or R in JupyterLab or RStudio/Shiny.
+### Working with the data
+
+A summary of the datasets available in this project is in the table below. In
+order to work more efficiently with the data, we have implemented a set of
+"converters" to standardize the various datasets to a subset of useful fields.
+Each converter is aware of the details of each dataset and produces a view of
+the dataset that is homogenized with the others. In this way, we are able to
+visualize with simple commands data of very different origins using very simple
+procedures.
+
+For example, to work with the JHU-CSSE country-level data as well as the more
+detailed dataset on Spain:
+
+```python
+from covid_19_utils.converters import CaseConverter
+
+converter = CaseConverter('./data/atlas')
+jhu_df = converter.read_convert('./data/covid-19_jhu-csse')
+spain_df = converter.read_convert('./data/covid-19-spain')
+```
+
+The resulting DataFrames have exactly the same structure so they can be used
+interchangably in any analysis or plotting code. See the [standardization
+notebook]('notebooks/process/standardize_datasets.ipynb') for a more complete
+example.
+
### Updating your branch or fork
The data in the main master branch of this project is updated daily - how can
diff --git a/notebooks/Dashboard.ipynb b/notebooks/Dashboard.ipynb
index 335af9a34b0b699bc7504aaa32ab713156ba0d70..6c8183f6cba676e56a5eeef222077796dabbd54c 100644
--- a/notebooks/Dashboard.ipynb
+++ b/notebooks/Dashboard.ipynb
@@ -2,7 +2,7 @@
"cells": [
{
"cell_type": "code",
- "execution_count": 1,
+ "execution_count": null,
"metadata": {},
"outputs": [],
"source": [
@@ -12,7 +12,7 @@
},
{
"cell_type": "code",
- "execution_count": 2,
+ "execution_count": null,
"metadata": {},
"outputs": [],
"source": [
@@ -26,7 +26,7 @@
},
{
"cell_type": "code",
- "execution_count": 3,
+ "execution_count": null,
"metadata": {
"tags": [
"parameters"
@@ -43,7 +43,7 @@
},
{
"cell_type": "code",
- "execution_count": 4,
+ "execution_count": null,
"metadata": {},
"outputs": [],
"source": [
@@ -65,7 +65,7 @@
},
{
"cell_type": "code",
- "execution_count": 5,
+ "execution_count": null,
"metadata": {},
"outputs": [],
"source": [
@@ -89,22 +89,15 @@
"Understanding the spread, distribution, and deadliness of COVID-19 is difficult, despite the data available about it. Differences in rates of testing, quality of data, demographics, etc. make it difficult to compare data between countries. \n",
"\n",
"All this needs to be considered when looking at the plots below. But despite those caveats, I found it helpful to plot the raw data, even though direct comparisons between countries might not be inaccurate."
- ]
+ ],
+ "execution_count": null,
+ "outputs": []
},
{
"cell_type": "code",
- "execution_count": 6,
+ "execution_count": null,
"metadata": {},
- "outputs": [
- {
- "output_type": "display_data",
- "data": {
- "text/plain": "<IPython.core.display.HTML object>",
- "text/html": "<em>Data up to Apr 06 2020; countries with 500 or more confirmed cases.</em>"
- },
- "metadata": {}
- }
- ],
+ "outputs": [],
"source": [
"data_ts = jhu_df.date.iloc[-1].strftime(\"%b %d %Y\")\n",
"display(HTML(f\"<em>Data up to {data_ts}; countries with {nthresh} or more confirmed cases.</em>\"))"
@@ -115,18 +108,13 @@
"metadata": {},
"source": [
"## How are cases per 100,000 distributed geographically?"
- ]
- },
- {
- "cell_type": "code",
- "execution_count": 12,
- "metadata": {},
- "outputs": [],
- "source": []
+ ],
+ "execution_count": null,
+ "outputs": []
},
{
"cell_type": "code",
- "execution_count": 7,
+ "execution_count": null,
"metadata": {},
"outputs": [],
"source": [
@@ -135,7 +123,7 @@
},
{
"cell_type": "code",
- "execution_count": 8,
+ "execution_count": null,
"metadata": {},
"outputs": [],
"source": [
@@ -145,26 +133,9 @@
},
{
"cell_type": "code",
- "execution_count": 9,
+ "execution_count": null,
"metadata": {},
- "outputs": [
- {
- "output_type": "display_data",
- "data": {
- "text/html": "\n<div id=\"altair-viz-23431ded133f4c6dae6f7d3dea7d0048\"></div>\n<script type=\"text/javascript\">\n (function(spec, embedOpt){\n const outputDiv = document.getElementById(\"altair-viz-23431ded133f4c6dae6f7d3dea7d0048\");\n const paths = {\n \"vega\": \"https://cdn.jsdelivr.net/npm//vega@5?noext\",\n \"vega-lib\": \"https://cdn.jsdelivr.net/npm//vega-lib?noext\",\n \"vega-lite\": \"https://cdn.jsdelivr.net/npm//vega-lite@4.0.2?noext\",\n \"vega-embed\": \"https://cdn.jsdelivr.net/npm//vega-embed@6?noext\",\n };\n\n function loadScript(lib) {\n return new Promise(function(resolve, reject) {\n var s = document.createElement('script');\n s.src = paths[lib];\n s.async = true;\n s.onload = () => resolve(paths[lib]);\n s.onerror = () => reject(`Error loading script: ${paths[lib]}`);\n document.getElementsByTagName(\"head\")[0].appendChild(s);\n });\n }\n\n function showError(err) {\n outputDiv.innerHTML = `<div class=\"error\" style=\"color:red;\">${err}</div>`;\n throw err;\n }\n\n function displayChart(vegaEmbed) {\n vegaEmbed(outputDiv, spec, embedOpt)\n .catch(err => showError(`Javascript Error: ${err.message}<br>This usually means there's a typo in your chart specification. See the javascript console for the full traceback.`));\n }\n\n if(typeof define === \"function\" && define.amd) {\n requirejs.config({paths});\n require([\"vega-embed\"], displayChart, err => showError(`Error loading script: ${err.message}`));\n } else if (typeof vegaEmbed === \"function\") {\n displayChart(vegaEmbed);\n } else {\n loadScript(\"vega\")\n .then(() => loadScript(\"vega-lite\"))\n .then(() => loadScript(\"vega-embed\"))\n .catch(showError)\n .then(() => displayChart(vegaEmbed));\n }\n })({\"config\": {\"view\": {\"continuousWidth\": 400, \"continuousHeight\": 300, \"stroke\": null}}, \"layer\": [{\"data\": {\"sphere\": true}, \"mark\": {\"type\": \"geoshape\", \"fill\": \"#cae6ef\"}}, {\"data\": {\"graticule\": true}, \"mark\": {\"type\": \"geoshape\", \"stroke\": \"white\", \"strokeWidth\": 0.5}}, {\"data\": {\"url\": \"https://vega.github.io/vega-datasets/data/world-110m.json\", \"format\": {\"feature\": \"countries\", \"type\": \"topojson\"}}, \"mark\": {\"type\": \"geoshape\", \"fill\": \"#dddddd\", \"stroke\": \"#aaaaaa\"}}, {\"data\": {\"name\": \"data-6ab0790826a17bfe12193ed1eb7f4285\"}, \"mark\": {\"type\": \"circle\", \"opacity\": 0.6}, \"encoding\": {\"color\": {\"value\": \"steelblue\"}, \"latitude\": {\"field\": \"Latitude\", \"type\": \"quantitative\"}, \"longitude\": {\"field\": \"Longitude\", \"type\": \"quantitative\"}, \"size\": {\"type\": \"quantitative\", \"field\": \"positive_100k\", \"title\": \"Cases\"}, \"tooltip\": [{\"type\": \"nominal\", \"field\": \"country_label\"}, {\"type\": \"quantitative\", \"field\": \"positive\"}, {\"type\": \"quantitative\", \"field\": \"deceased\"}, {\"type\": \"quantitative\", \"field\": \"positive_100k\"}, {\"type\": \"quantitative\", \"field\": \"deceasaed_100k\"}]}}], \"height\": 400, \"projection\": {\"type\": \"naturalEarth1\"}, \"title\": \"Positive cases per 100k inhabitants\", \"width\": 600, \"$schema\": \"https://vega.github.io/schema/vega-lite/v4.0.2.json\", \"datasets\": {\"data-6ab0790826a17bfe12193ed1eb7f4285\": [{\"date\": \"2020-04-06T00:00:00\", \"country\": \"DZA\", \"country_label\": \"Algeria\", \"region_iso\": \"DZA\", \"region_label\": \"Algeria\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1423, \"deceased\": 173, \"positive_100k\": 3.3697677931613317, \"deceased_100k\": 0.40967661856423787, \"Latitude\": 28.15893849, \"Longitude\": 2.61732301, \"Geo Region\": \"Africa\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ARG\", \"country_label\": \"Argentina\", \"region_iso\": \"ARG\", \"region_label\": \"Argentina\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1554, \"deceased\": 48, \"positive_100k\": 3.492566339994096, \"deceased_100k\": 0.10787849698823464, \"Latitude\": -35.3813488, \"Longitude\": -65.17980692, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ARM\", \"country_label\": \"Armenia\", \"region_iso\": \"ARM\", \"region_label\": \"Armenia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 833, \"deceased\": 8, \"positive_100k\": 28.220298559240266, \"deceased_100k\": 0.27102327547889815, \"Latitude\": 40.28952569, \"Longitude\": 44.92993276, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"AUS\", \"country_label\": \"Australia\", \"region_iso\": \"AUS\", \"region_label\": \"Australia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 5797, \"deceased\": 40, \"positive_100k\": 23.19508006623942, \"deceased_100k\": 0.16004885331198493, \"Latitude\": -25.73288704, \"Longitude\": 134.49100008, \"Geo Region\": \"Oceania\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"AUT\", \"country_label\": \"Austria\", \"region_iso\": \"AUT\", \"region_label\": \"Austria\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 12297, \"deceased\": 220, \"positive_100k\": 138.99568861303507, \"deceased_100k\": 2.4867082617604064, \"Latitude\": 47.58549439, \"Longitude\": 14.1264761, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"AZE\", \"country_label\": \"Azerbaijan\", \"region_iso\": \"AZE\", \"region_label\": \"Azerbaijan\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 641, \"deceased\": 7, \"positive_100k\": 6.447178298375412, \"deceased_100k\": 0.07040600325838983, \"Latitude\": 40.28827235, \"Longitude\": 47.54599879, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"BHR\", \"country_label\": \"Bahrain\", \"region_iso\": \"BHR\", \"region_label\": \"Bahrain\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 756, \"deceased\": 4, \"positive_100k\": 48.17007860770632, \"deceased_100k\": 0.25486814078151493, \"Latitude\": 26.04205135, \"Longitude\": 50.54196932, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"BLR\", \"country_label\": \"Belarus\", \"region_iso\": \"BLR\", \"region_label\": \"Belarus\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 700, \"deceased\": 13, \"positive_100k\": 7.379773474690435, \"deceased_100k\": 0.13705293595853665, \"Latitude\": 53.53131377, \"Longitude\": 28.03209307, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"BEL\", \"country_label\": \"Belgium\", \"region_iso\": \"BEL\", \"region_label\": \"Belgium\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 20814, \"deceased\": 1632, \"positive_100k\": 182.2261958167295, \"deceased_100k\": 14.288130660752502, \"Latitude\": 50.63981576, \"Longitude\": 4.64065114, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"BRA\", \"country_label\": \"Brazil\", \"region_iso\": \"BRA\", \"region_label\": \"Brazil\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 12161, \"deceased\": 564, \"positive_100k\": 5.805623107607833, \"deceased_100k\": 0.2692518240844353, \"Latitude\": -10.78777702, \"Longitude\": -53.09783113, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"BGR\", \"country_label\": \"Bulgaria\", \"region_iso\": \"BGR\", \"region_label\": \"Bulgaria\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 549, \"deceased\": 22, \"positive_100k\": 7.8158188757293345, \"deceased_100k\": 0.313202213599354, \"Latitude\": 42.76890318, \"Longitude\": 25.21552909, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"CMR\", \"country_label\": \"Cameroon\", \"region_iso\": \"CMR\", \"region_label\": \"Cameroon\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 658, \"deceased\": 9, \"positive_100k\": 2.6094297892266796, \"deceased_100k\": 0.035691288910395316, \"Latitude\": 5.69109849, \"Longitude\": 12.73964156, \"Geo Region\": \"Africa\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"CAN\", \"country_label\": \"Canada\", \"region_iso\": \"CAN\", \"region_label\": \"Canada\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 16563, \"deceased\": 339, \"positive_100k\": 44.69377036355358, \"deceased_100k\": 0.9147611032569382, \"Latitude\": 61.36206324, \"Longitude\": -98.30777028, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"CHL\", \"country_label\": \"Chile\", \"region_iso\": \"CHL\", \"region_label\": \"Chile\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 4815, \"deceased\": 37, \"positive_100k\": 25.70857422329672, \"deceased_100k\": 0.19755290680414928, \"Latitude\": -37.73070989, \"Longitude\": -71.38256213, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"CHN\", \"country_label\": \"China\", \"region_iso\": \"CHN\", \"region_label\": \"China\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 82665, \"deceased\": 3335, \"positive_100k\": 5.935464878332484, \"deceased_100k\": 0.23945775563102684, \"Latitude\": 36.56176546, \"Longitude\": 103.81907349, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"COL\", \"country_label\": \"Colombia\", \"region_iso\": \"COL\", \"region_label\": \"Colombia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1579, \"deceased\": 46, \"positive_100k\": 3.1803460655604474, \"deceased_100k\": 0.09265099367687181, \"Latitude\": 3.91383431, \"Longitude\": -73.08114582, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"HRV\", \"country_label\": \"Croatia\", \"region_iso\": \"HRV\", \"region_label\": \"Croatia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1222, \"deceased\": 16, \"positive_100k\": 29.882134298430085, \"deceased_100k\": 0.39125544089597497, \"Latitude\": 45.08047631, \"Longitude\": 16.40412899, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"DNK\", \"country_label\": \"Denmark\", \"region_iso\": \"DNK\", \"region_label\": \"Denmark\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 4875, \"deceased\": 187, \"positive_100k\": 84.08875218501389, \"deceased_100k\": 3.2255582889430965, \"Latitude\": 55.98125296, \"Longitude\": 10.02800992, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ECU\", \"country_label\": \"Ecuador\", \"region_iso\": \"ECU\", \"region_label\": \"Ecuador\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 3747, \"deceased\": 191, \"positive_100k\": 21.932344307719628, \"deceased_100k\": 1.1179817888375898, \"Latitude\": -1.42381612, \"Longitude\": -78.75201922, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"EST\", \"country_label\": \"Estonia\", \"region_iso\": \"EST\", \"region_label\": \"Estonia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1108, \"deceased\": 19, \"positive_100k\": 83.88321760275694, \"deceased_100k\": 1.4384306267620774, \"Latitude\": 58.67192972, \"Longitude\": 25.54248537, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"FIN\", \"country_label\": \"Finland\", \"region_iso\": \"FIN\", \"region_label\": \"Finland\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 2176, \"deceased\": 27, \"positive_100k\": 39.43422042206939, \"deceased_100k\": 0.4893032864870742, \"Latitude\": 64.49884603, \"Longitude\": 26.2746656, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"FRA\", \"country_label\": \"France\", \"region_iso\": \"FRA\", \"region_label\": \"France\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 98963, \"deceased\": 8926, \"positive_100k\": 147.7340969573252, \"deceased_100k\": 13.324924966311496, \"Latitude\": 42.17344011, \"Longitude\": -2.76172945, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"DEU\", \"country_label\": \"Germany\", \"region_iso\": \"DEU\", \"region_label\": \"Germany\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 103374, \"deceased\": 1810, \"positive_100k\": 124.65523976351416, \"deceased_100k\": 2.182618298333823, \"Latitude\": 51.10698181, \"Longitude\": 10.38578051, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"GRC\", \"country_label\": \"Greece\", \"region_iso\": \"GRC\", \"region_label\": \"Greece\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1755, \"deceased\": 79, \"positive_100k\": 16.35956668308527, \"deceased_100k\": 0.73641354299928, \"Latitude\": 39.07469623, \"Longitude\": 22.95555794, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"HUN\", \"country_label\": \"Hungary\", \"region_iso\": \"HUN\", \"region_label\": \"Hungary\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 744, \"deceased\": 38, \"positive_100k\": 7.616095553336469, \"deceased_100k\": 0.3889941277241745, \"Latitude\": 47.16277506, \"Longitude\": 19.39559116, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"IND\", \"country_label\": \"India\", \"region_iso\": \"IND\", \"region_label\": \"India\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 4778, \"deceased\": 136, \"positive_100k\": 0.35324107573461455, \"deceased_100k\": 0.010054580640415986, \"Latitude\": 22.88578212, \"Longitude\": 79.61197609999998, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"IDN\", \"country_label\": \"Indonesia\", \"region_iso\": \"IDN\", \"region_label\": \"Indonesia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 2491, \"deceased\": 209, \"positive_100k\": 0.9306463544413529, \"deceased_100k\": 0.07808313451555308, \"Latitude\": -2.21505456, \"Longitude\": 117.24011366, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"IRQ\", \"country_label\": \"Iraq\", \"region_iso\": \"IRQ\", \"region_label\": \"Iraq\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1031, \"deceased\": 64, \"positive_100k\": 2.6825486033054413, \"deceased_100k\": 0.16652096082594398, \"Latitude\": 33.03970582, \"Longitude\": 43.74353149, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"IRL\", \"country_label\": \"Ireland\", \"region_iso\": \"IRL\", \"region_label\": \"Ireland\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 5364, \"deceased\": 174, \"positive_100k\": 110.51804612995225, \"deceased_100k\": 3.5850372905689207, \"Latitude\": 53.17544870000001, \"Longitude\": -8.13793569, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ISR\", \"country_label\": \"Israel\", \"region_iso\": \"ISR\", \"region_label\": \"Israel\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 8904, \"deceased\": 57, \"positive_100k\": 100.22738017515027, \"deceased_100k\": 0.6416173259190887, \"Latitude\": 31.46110101, \"Longitude\": 35.00444693, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ITA\", \"country_label\": \"Italy\", \"region_iso\": \"ITA\", \"region_label\": \"Italy\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 132547, \"deceased\": 16523, \"positive_100k\": 219.3350751795225, \"deceased_100k\": 27.341799114210435, \"Latitude\": 42.79662641, \"Longitude\": 12.07001339, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"JPN\", \"country_label\": \"Japan\", \"region_iso\": \"JPN\", \"region_label\": \"Japan\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 3654, \"deceased\": 85, \"positive_100k\": 2.887873224420311, \"deceased_100k\": 0.06717822224294648, \"Latitude\": 37.59230135, \"Longitude\": 138.03089558, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"KAZ\", \"country_label\": \"Kazakhstan\", \"region_iso\": \"KAZ\", \"region_label\": \"Kazakhstan\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 662, \"deceased\": 6, \"positive_100k\": 3.622137916019912, \"deceased_100k\": 0.03282904455607171, \"Latitude\": 48.15688067, \"Longitude\": 67.29149357, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"KWT\", \"country_label\": \"Kuwait\", \"region_iso\": \"KWT\", \"region_label\": \"Kuwait\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 665, \"deceased\": 1, \"positive_100k\": 16.073249544571123, \"deceased_100k\": 0.024170300067024243, \"Latitude\": 29.33431262, \"Longitude\": 47.58700459, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"LVA\", \"country_label\": \"Latvia\", \"region_iso\": \"LVA\", \"region_label\": \"Latvia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 542, \"deceased\": 1, \"positive_100k\": 28.133308279809107, \"deceased_100k\": 0.051906472840976214, \"Latitude\": 56.85085163, \"Longitude\": 24.91235983, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"LBN\", \"country_label\": \"Lebanon\", \"region_iso\": \"LBN\", \"region_label\": \"Lebanon\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 541, \"deceased\": 19, \"positive_100k\": 7.899049850889008, \"deceased_100k\": 0.2774157988297434, \"Latitude\": 33.92306631, \"Longitude\": 35.88016072, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"LTU\", \"country_label\": \"Lithuania\", \"region_iso\": \"LTU\", \"region_label\": \"Lithuania\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 843, \"deceased\": 15, \"positive_100k\": 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1120, \"deceased\": 80, \"positive_100k\": 3.1085950488185423, \"deceased_100k\": 0.22204250348703872, \"Latitude\": 29.83762955, \"Longitude\": -8.45615795, \"Geo Region\": \"Africa\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"NLD\", \"country_label\": \"Netherlands\", \"region_iso\": \"NLD\", \"region_label\": \"Netherlands\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 18926, \"deceased\": 1874, \"positive_100k\": 109.83681346260641, \"deceased_100k\": 10.875736469878708, \"Latitude\": 52.1007899, \"Longitude\": 5.28144793, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"NZL\", \"country_label\": \"New Zealand\", \"region_iso\": \"NZL\", \"region_label\": \"New Zealand\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1106, \"deceased\": 1, \"positive_100k\": 22.63841981373452, \"deceased_100k\": 0.020468734008801556, \"Latitude\": -41.81113557, \"Longitude\": 171.48492347, \"Geo Region\": \"Oceania\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"NOR\", \"country_label\": \"Norway\", \"region_iso\": \"NOR\", \"region_label\": \"Norway\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 5865, \"deceased\": 76, \"positive_100k\": 110.3618589415498, \"deceased_100k\": 1.4300939948095115, \"Latitude\": 68.75015572, \"Longitude\": 15.34834656, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"PAK\", \"country_label\": \"Pakistan\", \"region_iso\": \"PAK\", \"region_label\": \"Pakistan\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 3766, \"deceased\": 53, \"positive_100k\": 1.7746151156211698, \"deceased_100k\": 0.02497466838234785, \"Latitude\": 29.9497515, \"Longitude\": 69.33957937, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"PAN\", \"country_label\": \"Panama\", \"region_iso\": \"PAN\", \"region_label\": \"Panama\", \"admin2\": \"\", 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11.77536778, \"Longitude\": 122.88393253, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"POL\", \"country_label\": \"Poland\", \"region_iso\": \"POL\", \"region_label\": \"Poland\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 4413, \"deceased\": 107, \"positive_100k\": 11.619717531065168, \"deceased_100k\": 0.2817379958812538, \"Latitude\": 52.12759564, \"Longitude\": 19.39012835, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"PRT\", \"country_label\": \"Portugal\", \"region_iso\": \"PRT\", \"region_label\": \"Portugal\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 11730, \"deceased\": 311, \"positive_100k\": 114.08550402158696, \"deceased_100k\": 3.0247733802824848, \"Latitude\": 39.59550671, \"Longitude\": -8.50104361, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"QAT\", \"country_label\": \"Qatar\", \"region_iso\": \"QAT\", \"region_label\": \"Qatar\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1832, \"deceased\": 4, \"positive_100k\": 65.85955163018568, \"deceased_100k\": 0.14379814766416085, \"Latitude\": 25.30601188, \"Longitude\": 51.18479632, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ROU\", \"country_label\": \"Romania\", \"region_iso\": \"ROU\", \"region_label\": \"Romania\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 4057, \"deceased\": 176, \"positive_100k\": 20.83297387852153, \"deceased_100k\": 0.9037720982548161, \"Latitude\": 45.85243127, \"Longitude\": 24.97293039, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"SAU\", \"country_label\": \"Saudi Arabia\", \"region_iso\": \"SAU\", \"region_label\": \"Saudi Arabia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 2605, \"deceased\": 38, \"positive_100k\": 7.729982483355241, \"deceased_100k\": 0.11275982125431828, \"Latitude\": 24.12245841, \"Longitude\": 44.53686271, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"SRB\", \"country_label\": \"Serbia\", \"region_iso\": \"SRB\", \"region_label\": \"Serbia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 2200, \"deceased\": 58, \"positive_100k\": 31.509217018872878, \"deceased_100k\": 0.8306975395884667, \"Latitude\": 44.2215032, \"Longitude\": 20.78958334, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"SGP\", \"country_label\": \"Singapore\", \"region_iso\": \"SGP\", \"region_label\": \"Singapore\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1375, \"deceased\": 6, \"positive_100k\": 24.385157082974796, \"deceased_100k\": 0.10640795818025367, \"Latitude\": 1.35876087, \"Longitude\": 103.81725592, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"SVN\", \"country_label\": \"Slovenia\", \"region_iso\": \"SVN\", \"region_label\": \"Slovenia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1021, \"deceased\": 30, \"positive_100k\": 49.38637071605884, \"deceased_100k\": 1.4511176508146575, \"Latitude\": 46.11554772, \"Longitude\": 14.80444238, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ZAF\", \"country_label\": \"South Africa\", \"region_iso\": \"ZAF\", \"region_label\": \"South Africa\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1686, \"deceased\": 12, \"positive_100k\": 2.9179837832791637, \"deceased_100k\": 0.020768567852520736, \"Latitude\": -29.00034095, \"Longitude\": 25.08390093, \"Geo Region\": \"Africa\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ESP\", \"country_label\": \"Spain\", \"region_iso\": \"ESP\", \"region_label\": \"Spain\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 136675, \"deceased\": 13341, \"positive_100k\": 292.5171950564155, \"deceased_100k\": 28.552931401116805, \"Latitude\": 40.24448698, \"Longitude\": -3.64755047, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"SWE\", \"country_label\": \"Sweden\", \"region_iso\": \"SWE\", \"region_label\": \"Sweden\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 7206, \"deceased\": 477, \"positive_100k\": 70.76378437962619, \"deceased_100k\": 4.684197217469012, \"Latitude\": 62.77966519, \"Longitude\": 16.74558049, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"CHE\", \"country_label\": \"Switzerland\", \"region_iso\": \"CHE\", \"region_label\": \"Switzerland\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 21657, \"deceased\": 765, \"positive_100k\": 254.2933206583939, \"deceased_100k\": 8.982517906620092, \"Latitude\": 46.79785878, \"Longitude\": 8.20867471, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"THA\", \"country_label\": \"Thailand\", \"region_iso\": \"THA\", \"region_label\": \"Thailand\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 2220, \"deceased\": 26, \"positive_100k\": 3.1975330485205187, \"deceased_100k\": 0.03744858525294301, \"Latitude\": 15.11815794, \"Longitude\": 101.0028813, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"TUN\", \"country_label\": \"Tunisia\", \"region_iso\": \"TUN\", \"region_label\": \"Tunisia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 596, \"deceased\": 22, \"positive_100k\": 5.1533894257291095, \"deceased_100k\": 0.19022578417120872, \"Latitude\": 34.11956246, \"Longitude\": 9.55288359, \"Geo Region\": \"Africa\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"TUR\", \"country_label\": \"Turkey\", \"region_iso\": \"TUR\", \"region_label\": \"Turkey\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 30217, \"deceased\": 649, \"positive_100k\": 36.70687719992842, \"deceased_100k\": 0.7883894265729073, \"Latitude\": 39.0616029, \"Longitude\": 35.16895346, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"USA\", \"country_label\": \"United States\", \"region_iso\": \"USA\", \"region_label\": \"United States\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 366614, \"deceased\": 10783, \"positive_100k\": 112.05699647966797, \"deceased_100k\": 3.2958659326710373, \"Latitude\": 45.6795472, \"Longitude\": -112.4616737, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"UKR\", \"country_label\": \"Ukraine\", \"region_iso\": \"UKR\", \"region_label\": \"Ukraine\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1319, \"deceased\": 38, \"positive_100k\": 2.955906834119349, \"deceased_100k\": 0.08515880189274849, \"Latitude\": 48.99656673, \"Longitude\": 31.38326469, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ARE\", \"country_label\": \"United Arab Emirates\", \"region_iso\": \"ARE\", \"region_label\": \"United Arab Emirates\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 2076, \"deceased\": 11, \"positive_100k\": 21.555485803646345, \"deceased_100k\": 0.11421500184976387, \"Latitude\": 23.90528188, \"Longitude\": 54.3001671, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"GBR\", \"country_label\": \"United Kingdom\", \"region_iso\": \"GBR\", \"region_label\": \"United Kingdom\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 52279, \"deceased\": 5385, \"positive_100k\": 78.62805437970927, \"deceased_100k\": 8.099085155315413, \"Latitude\": 54.12387156, \"Longitude\": -2.86563164, \"Geo Region\": \"Europe\"}]}}, {\"mode\": \"vega-lite\"});\n</script>",
- "text/plain": "alt.LayerChart(...)"
- },
- "metadata": {}
- },
- {
- "output_type": "display_data",
- "data": {
- "text/plain": "<IPython.core.display.HTML object>",
- "text/html": "\n<p style=\"font-size: smaller\">Data Sources: \n <a href=\"https://github.com/CSSEGISandData/COVID-19\">JHU CSSE</a>,\n <a href=\"https://data.worldbank.org/indicator/SP.POP.TOTL\">World Bank</a>,\n <a href=\"https://worldmap.harvard.edu/data/geonode:country_centroids_az8\">Harvard Worldmap</a>\n</p>"
- },
- "metadata": {}
- }
- ],
+ "outputs": [],
"source": [
"display(helper.map_of_variable(map_df, 'positive_100k', 'Positive'))\n",
"display(HTML('''\n",
@@ -177,26 +148,9 @@
},
{
"cell_type": "code",
- "execution_count": 10,
+ "execution_count": null,
"metadata": {},
- "outputs": [
- {
- "output_type": "display_data",
- "data": {
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\"$schema\": \"https://vega.github.io/schema/vega-lite/v4.0.2.json\", \"datasets\": {\"data-6ab0790826a17bfe12193ed1eb7f4285\": [{\"date\": \"2020-04-06T00:00:00\", \"country\": \"DZA\", \"country_label\": \"Algeria\", \"region_iso\": \"DZA\", \"region_label\": \"Algeria\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1423, \"deceased\": 173, \"positive_100k\": 3.3697677931613317, \"deceased_100k\": 0.40967661856423787, \"Latitude\": 28.15893849, \"Longitude\": 2.61732301, \"Geo Region\": \"Africa\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ARG\", \"country_label\": \"Argentina\", \"region_iso\": \"ARG\", \"region_label\": \"Argentina\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1554, \"deceased\": 48, \"positive_100k\": 3.492566339994096, \"deceased_100k\": 0.10787849698823464, \"Latitude\": -35.3813488, \"Longitude\": -65.17980692, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": 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\"2020-04-06T00:00:00\", \"country\": \"BLR\", \"country_label\": \"Belarus\", \"region_iso\": \"BLR\", \"region_label\": \"Belarus\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 700, \"deceased\": 13, \"positive_100k\": 7.379773474690435, \"deceased_100k\": 0.13705293595853665, \"Latitude\": 53.53131377, \"Longitude\": 28.03209307, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"BEL\", \"country_label\": \"Belgium\", \"region_iso\": \"BEL\", \"region_label\": \"Belgium\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 20814, \"deceased\": 1632, \"positive_100k\": 182.2261958167295, \"deceased_100k\": 14.288130660752502, \"Latitude\": 50.63981576, \"Longitude\": 4.64065114, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"BRA\", \"country_label\": \"Brazil\", \"region_iso\": \"BRA\", \"region_label\": \"Brazil\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 12161, \"deceased\": 564, \"positive_100k\": 5.805623107607833, \"deceased_100k\": 0.2692518240844353, \"Latitude\": -10.78777702, \"Longitude\": -53.09783113, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"BGR\", \"country_label\": \"Bulgaria\", \"region_iso\": \"BGR\", \"region_label\": \"Bulgaria\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 549, \"deceased\": 22, \"positive_100k\": 7.8158188757293345, \"deceased_100k\": 0.313202213599354, \"Latitude\": 42.76890318, \"Longitude\": 25.21552909, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"CMR\", \"country_label\": \"Cameroon\", \"region_iso\": \"CMR\", \"region_label\": \"Cameroon\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 658, \"deceased\": 9, \"positive_100k\": 2.6094297892266796, \"deceased_100k\": 0.035691288910395316, \"Latitude\": 5.69109849, \"Longitude\": 12.73964156, \"Geo Region\": \"Africa\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"CAN\", \"country_label\": \"Canada\", \"region_iso\": \"CAN\", \"region_label\": \"Canada\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 16563, \"deceased\": 339, \"positive_100k\": 44.69377036355358, \"deceased_100k\": 0.9147611032569382, \"Latitude\": 61.36206324, \"Longitude\": -98.30777028, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"CHL\", \"country_label\": \"Chile\", \"region_iso\": \"CHL\", \"region_label\": \"Chile\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 4815, \"deceased\": 37, \"positive_100k\": 25.70857422329672, \"deceased_100k\": 0.19755290680414928, \"Latitude\": -37.73070989, \"Longitude\": -71.38256213, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"CHN\", \"country_label\": \"China\", \"region_iso\": \"CHN\", \"region_label\": \"China\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 82665, \"deceased\": 3335, \"positive_100k\": 5.935464878332484, \"deceased_100k\": 0.23945775563102684, \"Latitude\": 36.56176546, \"Longitude\": 103.81907349, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"COL\", \"country_label\": \"Colombia\", \"region_iso\": \"COL\", \"region_label\": \"Colombia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1579, \"deceased\": 46, \"positive_100k\": 3.1803460655604474, \"deceased_100k\": 0.09265099367687181, \"Latitude\": 3.91383431, \"Longitude\": -73.08114582, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"HRV\", \"country_label\": \"Croatia\", \"region_iso\": \"HRV\", \"region_label\": \"Croatia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1222, \"deceased\": 16, \"positive_100k\": 29.882134298430085, \"deceased_100k\": 0.39125544089597497, \"Latitude\": 45.08047631, \"Longitude\": 16.40412899, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"DNK\", \"country_label\": \"Denmark\", \"region_iso\": \"DNK\", \"region_label\": \"Denmark\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 4875, \"deceased\": 187, \"positive_100k\": 84.08875218501389, \"deceased_100k\": 3.2255582889430965, \"Latitude\": 55.98125296, \"Longitude\": 10.02800992, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ECU\", \"country_label\": \"Ecuador\", \"region_iso\": \"ECU\", \"region_label\": \"Ecuador\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 3747, \"deceased\": 191, \"positive_100k\": 21.932344307719628, \"deceased_100k\": 1.1179817888375898, \"Latitude\": -1.42381612, \"Longitude\": -78.75201922, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"EST\", \"country_label\": \"Estonia\", \"region_iso\": \"EST\", \"region_label\": \"Estonia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1108, \"deceased\": 19, \"positive_100k\": 83.88321760275694, \"deceased_100k\": 1.4384306267620774, \"Latitude\": 58.67192972, \"Longitude\": 25.54248537, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"FIN\", \"country_label\": \"Finland\", \"region_iso\": \"FIN\", \"region_label\": \"Finland\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 2176, \"deceased\": 27, \"positive_100k\": 39.43422042206939, \"deceased_100k\": 0.4893032864870742, \"Latitude\": 64.49884603, \"Longitude\": 26.2746656, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"FRA\", \"country_label\": \"France\", \"region_iso\": \"FRA\", \"region_label\": \"France\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 98963, \"deceased\": 8926, \"positive_100k\": 147.7340969573252, \"deceased_100k\": 13.324924966311496, \"Latitude\": 42.17344011, \"Longitude\": -2.76172945, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"DEU\", \"country_label\": \"Germany\", \"region_iso\": \"DEU\", \"region_label\": \"Germany\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 103374, \"deceased\": 1810, \"positive_100k\": 124.65523976351416, \"deceased_100k\": 2.182618298333823, \"Latitude\": 51.10698181, \"Longitude\": 10.38578051, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"GRC\", \"country_label\": \"Greece\", \"region_iso\": \"GRC\", \"region_label\": \"Greece\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1755, \"deceased\": 79, \"positive_100k\": 16.35956668308527, \"deceased_100k\": 0.73641354299928, \"Latitude\": 39.07469623, \"Longitude\": 22.95555794, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"HUN\", \"country_label\": \"Hungary\", \"region_iso\": \"HUN\", \"region_label\": \"Hungary\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 744, \"deceased\": 38, \"positive_100k\": 7.616095553336469, \"deceased_100k\": 0.3889941277241745, \"Latitude\": 47.16277506, \"Longitude\": 19.39559116, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"IND\", \"country_label\": \"India\", \"region_iso\": \"IND\", \"region_label\": \"India\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 4778, \"deceased\": 136, \"positive_100k\": 0.35324107573461455, \"deceased_100k\": 0.010054580640415986, \"Latitude\": 22.88578212, \"Longitude\": 79.61197609999998, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"IDN\", \"country_label\": \"Indonesia\", \"region_iso\": \"IDN\", \"region_label\": \"Indonesia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 2491, \"deceased\": 209, \"positive_100k\": 0.9306463544413529, \"deceased_100k\": 0.07808313451555308, \"Latitude\": -2.21505456, \"Longitude\": 117.24011366, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"IRQ\", \"country_label\": \"Iraq\", \"region_iso\": \"IRQ\", \"region_label\": \"Iraq\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1031, \"deceased\": 64, \"positive_100k\": 2.6825486033054413, \"deceased_100k\": 0.16652096082594398, \"Latitude\": 33.03970582, \"Longitude\": 43.74353149, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"IRL\", \"country_label\": \"Ireland\", \"region_iso\": \"IRL\", \"region_label\": \"Ireland\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 5364, \"deceased\": 174, \"positive_100k\": 110.51804612995225, \"deceased_100k\": 3.5850372905689207, \"Latitude\": 53.17544870000001, \"Longitude\": -8.13793569, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ISR\", \"country_label\": \"Israel\", \"region_iso\": \"ISR\", \"region_label\": \"Israel\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 8904, \"deceased\": 57, \"positive_100k\": 100.22738017515027, \"deceased_100k\": 0.6416173259190887, \"Latitude\": 31.46110101, \"Longitude\": 35.00444693, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ITA\", \"country_label\": \"Italy\", \"region_iso\": \"ITA\", \"region_label\": \"Italy\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 132547, \"deceased\": 16523, \"positive_100k\": 219.3350751795225, \"deceased_100k\": 27.341799114210435, \"Latitude\": 42.79662641, \"Longitude\": 12.07001339, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"JPN\", \"country_label\": \"Japan\", \"region_iso\": \"JPN\", \"region_label\": \"Japan\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 3654, \"deceased\": 85, \"positive_100k\": 2.887873224420311, \"deceased_100k\": 0.06717822224294648, \"Latitude\": 37.59230135, \"Longitude\": 138.03089558, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"KAZ\", \"country_label\": \"Kazakhstan\", \"region_iso\": \"KAZ\", \"region_label\": \"Kazakhstan\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 662, \"deceased\": 6, \"positive_100k\": 3.622137916019912, \"deceased_100k\": 0.03282904455607171, \"Latitude\": 48.15688067, \"Longitude\": 67.29149357, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"KWT\", \"country_label\": \"Kuwait\", \"region_iso\": \"KWT\", \"region_label\": \"Kuwait\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 665, \"deceased\": 1, \"positive_100k\": 16.073249544571123, \"deceased_100k\": 0.024170300067024243, \"Latitude\": 29.33431262, \"Longitude\": 47.58700459, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"LVA\", \"country_label\": \"Latvia\", \"region_iso\": \"LVA\", \"region_label\": \"Latvia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 542, \"deceased\": 1, \"positive_100k\": 28.133308279809107, \"deceased_100k\": 0.051906472840976214, \"Latitude\": 56.85085163, \"Longitude\": 24.91235983, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"LBN\", \"country_label\": \"Lebanon\", \"region_iso\": \"LBN\", \"region_label\": \"Lebanon\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 541, \"deceased\": 19, \"positive_100k\": 7.899049850889008, \"deceased_100k\": 0.2774157988297434, \"Latitude\": 33.92306631, \"Longitude\": 35.88016072, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"LTU\", \"country_label\": \"Lithuania\", \"region_iso\": \"LTU\", \"region_label\": \"Lithuania\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 843, \"deceased\": 15, \"positive_100k\": 30.22011211195566, \"deceased_100k\": 0.5377244148034814, \"Latitude\": 55.32610984, \"Longitude\": 23.88719355, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"LUX\", \"country_label\": \"Luxembourg\", \"region_iso\": \"LUX\", \"region_label\": \"Luxembourg\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 2843, \"deceased\": 41, \"positive_100k\": 467.80796672195453, \"deceased_100k\": 6.746439196482638, \"Latitude\": 49.76725361, \"Longitude\": 6.07182201, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"MYS\", \"country_label\": \"Malaysia\", \"region_iso\": \"MYS\", \"region_label\": \"Malaysia\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 3793, \"deceased\": 62, \"positive_100k\": 12.03035277352282, \"deceased_100k\": 0.19664694752396913, \"Latitude\": 3.78986846, \"Longitude\": 109.69762284, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"MEX\", \"country_label\": \"Mexico\", \"region_iso\": \"MEX\", \"region_label\": \"Mexico\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 2143, \"deceased\": 94, \"positive_100k\": 1.6982222188833624, \"deceased_100k\": 0.07449038197621842, \"Latitude\": 23.94753724, \"Longitude\": -102.52345169, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"MDA\", \"country_label\": \"Moldova\", \"region_iso\": \"MDA\", \"region_label\": \"Moldova\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 965, \"deceased\": 19, \"positive_100k\": 27.21465993096783, \"deceased_100k\": 0.5358326825786411, \"Latitude\": 47.19498804, \"Longitude\": 28.45673372, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"MAR\", \"country_label\": \"Morocco\", \"region_iso\": \"MAR\", \"region_label\": \"Morocco\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1120, \"deceased\": 80, \"positive_100k\": 3.1085950488185423, \"deceased_100k\": 0.22204250348703872, \"Latitude\": 29.83762955, \"Longitude\": -8.45615795, \"Geo Region\": \"Africa\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"NLD\", \"country_label\": \"Netherlands\", \"region_iso\": \"NLD\", \"region_label\": \"Netherlands\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 18926, \"deceased\": 1874, \"positive_100k\": 109.83681346260641, \"deceased_100k\": 10.875736469878708, \"Latitude\": 52.1007899, \"Longitude\": 5.28144793, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"NZL\", \"country_label\": \"New Zealand\", \"region_iso\": \"NZL\", \"region_label\": \"New Zealand\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1106, \"deceased\": 1, \"positive_100k\": 22.63841981373452, \"deceased_100k\": 0.020468734008801556, \"Latitude\": -41.81113557, \"Longitude\": 171.48492347, \"Geo Region\": \"Oceania\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"NOR\", \"country_label\": \"Norway\", \"region_iso\": \"NOR\", \"region_label\": \"Norway\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 5865, \"deceased\": 76, \"positive_100k\": 110.3618589415498, \"deceased_100k\": 1.4300939948095115, \"Latitude\": 68.75015572, \"Longitude\": 15.34834656, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"PAK\", \"country_label\": \"Pakistan\", \"region_iso\": \"PAK\", \"region_label\": \"Pakistan\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 3766, \"deceased\": 53, \"positive_100k\": 1.7746151156211698, \"deceased_100k\": 0.02497466838234785, \"Latitude\": 29.9497515, \"Longitude\": 69.33957937, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"PAN\", \"country_label\": \"Panama\", \"region_iso\": \"PAN\", \"region_label\": \"Panama\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1988, \"deceased\": 54, \"positive_100k\": 47.59541408129957, \"deceased_100k\": 1.2928331792707128, \"Latitude\": 8.51750797, \"Longitude\": -80.11915156, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"PER\", \"country_label\": \"Peru\", \"region_iso\": \"PER\", \"region_label\": \"Peru\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 2561, \"deceased\": 92, \"positive_100k\": 8.005812951698532, \"deceased_100k\": 0.28759656054520305, \"Latitude\": -9.15280381, \"Longitude\": -74.38242685, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"PHL\", \"country_label\": \"Philippines\", \"region_iso\": \"PHL\", \"region_label\": \"Philippines\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 3660, \"deceased\": 163, \"positive_100k\": 3.4317243715495347, \"deceased_100k\": 0.15283362638321699, \"Latitude\": 11.77536778, \"Longitude\": 122.88393253, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"POL\", \"country_label\": \"Poland\", \"region_iso\": \"POL\", \"region_label\": \"Poland\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 4413, \"deceased\": 107, \"positive_100k\": 11.619717531065168, \"deceased_100k\": 0.2817379958812538, \"Latitude\": 52.12759564, \"Longitude\": 19.39012835, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"PRT\", \"country_label\": \"Portugal\", \"region_iso\": \"PRT\", \"region_label\": \"Portugal\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 11730, \"deceased\": 311, \"positive_100k\": 114.08550402158696, \"deceased_100k\": 3.0247733802824848, \"Latitude\": 39.59550671, \"Longitude\": -8.50104361, \"Geo Region\": \"Europe\"}, {\"date\": 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\"TUR\", \"region_label\": \"Turkey\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 30217, \"deceased\": 649, \"positive_100k\": 36.70687719992842, \"deceased_100k\": 0.7883894265729073, \"Latitude\": 39.0616029, \"Longitude\": 35.16895346, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"USA\", \"country_label\": \"United States\", \"region_iso\": \"USA\", \"region_label\": \"United States\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 366614, \"deceased\": 10783, \"positive_100k\": 112.05699647966797, \"deceased_100k\": 3.2958659326710373, \"Latitude\": 45.6795472, \"Longitude\": -112.4616737, \"Geo Region\": \"Americas\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"UKR\", \"country_label\": \"Ukraine\", \"region_iso\": \"UKR\", \"region_label\": \"Ukraine\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 1319, \"deceased\": 38, \"positive_100k\": 2.955906834119349, \"deceased_100k\": 0.08515880189274849, \"Latitude\": 48.99656673, \"Longitude\": 31.38326469, \"Geo Region\": \"Europe\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"ARE\", \"country_label\": \"United Arab Emirates\", \"region_iso\": \"ARE\", \"region_label\": \"United Arab Emirates\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 2076, \"deceased\": 11, \"positive_100k\": 21.555485803646345, \"deceased_100k\": 0.11421500184976387, \"Latitude\": 23.90528188, \"Longitude\": 54.3001671, \"Geo Region\": \"Asia\"}, {\"date\": \"2020-04-06T00:00:00\", \"country\": \"GBR\", \"country_label\": \"United Kingdom\", \"region_iso\": \"GBR\", \"region_label\": \"United Kingdom\", \"admin2\": \"\", \"admin2_label\": \"\", \"tested\": \"\", \"positive\": 52279, \"deceased\": 5385, \"positive_100k\": 78.62805437970927, \"deceased_100k\": 8.099085155315413, \"Latitude\": 54.12387156, \"Longitude\": -2.86563164, \"Geo Region\": \"Europe\"}]}}, 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- },
- "metadata": {}
- },
- {
- "output_type": "display_data",
- "data": {
- "text/plain": "<IPython.core.display.HTML object>",
- "text/html": "\n<p style=\"font-size: smaller\">Data Sources: \n <a href=\"https://github.com/CSSEGISandData/COVID-19\">JHU CSSE</a>,\n <a href=\"https://data.worldbank.org/indicator/SP.POP.TOTL\">World Bank</a>,\n <a href=\"https://worldmap.harvard.edu/data/geonode:country_centroids_az8\">Harvard Worldmap</a>\n</p>"
- },
- "metadata": {}
- }
- ],
+ "outputs": [],
"source": [
"bars = alt.Chart(map_df).mark_bar().encode(\n",
" x=alt.X('positive_100k:Q', title='Positive cases/100k'),\n",
@@ -229,30 +183,15 @@
"metadata": {},
"source": [
"## How have cases been growing?"
- ]
+ ],
+ "execution_count": null,
+ "outputs": []
},
{
"cell_type": "code",
- "execution_count": 11,
+ "execution_count": null,
"metadata": {},
- "outputs": [
- {
- "output_type": "display_data",
- "data": {
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- "text/html": "\n<p style=\"font-size: smaller\">Data Sources: \n <a href=\"https://github.com/CSSEGISandData/COVID-19\">JHU CSSE</a>,\n <a href=\"https://data.worldbank.org/indicator/SP.POP.TOTL\">World Bank</a>,\n <a href=\"https://worldmap.harvard.edu/data/geonode:country_centroids_az8\">Harvard Worldmap</a>\n</p>"
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"source": [
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"per_capita_thresh = 50\n",
@@ -291,7 +230,7 @@
},
{
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+ "execution_count": null,
"metadata": {},
"outputs": [],
"source": [
@@ -303,26 +242,9 @@
},
{
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- "execution_count": 13,
+ "execution_count": null,
"metadata": {},
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- "text/plain": "alt.VConcatChart(...)"
- },
- "metadata": {}
- },
- {
- "output_type": "display_data",
- "data": {
- "text/plain": "<IPython.core.display.HTML object>",
- "text/html": "\n<p style=\"font-size: smaller\">Data Sources: \n <a href=\"https://github.com/CSSEGISandData/COVID-19\">JHU CSSE</a>,\n <a href=\"https://data.worldbank.org/indicator/SP.POP.TOTL\">World Bank</a>,\n <a href=\"https://worldmap.harvard.edu/data/geonode:country_centroids_az8\">Harvard Worldmap</a>\n</p>\n<p style=\"font-size: smaller\">Inspired by <a href=\"https://covid19dashboards.com/growth-analysis/\">Thomas Wiecki</a>"
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- "metadata": {}
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- ],
+ "outputs": [],
"source": [
"sort_order = since_df.groupby(\n",
" 'country_label').max().sort_values(\n",
@@ -350,26 +272,9 @@
},
{
"cell_type": "code",
- "execution_count": 14,
+ "execution_count": null,
"metadata": {},
- "outputs": [
- {
- "output_type": "display_data",
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3.2958659326710373, \"Latitude\": 45.6795472, \"Longitude\": -112.4616737, \"Geo Region\": \"Americas\", \"sinceDay0\": 34}]}}, {\"mode\": \"vega-lite\"});\n</script>",
- "text/plain": "alt.VConcatChart(...)"
- },
- "metadata": {}
- },
- {
- "output_type": "display_data",
- "data": {
- "text/plain": "<IPython.core.display.HTML object>",
- "text/html": "\n<p style=\"font-size: smaller\">Data Sources: \n <a href=\"https://github.com/CSSEGISandData/COVID-19\">JHU CSSE</a>,\n <a href=\"https://data.worldbank.org/indicator/SP.POP.TOTL\">World Bank</a>,\n <a href=\"https://worldmap.harvard.edu/data/geonode:country_centroids_az8\">Harvard Worldmap</a>\n</p>"
- },
- "metadata": {}
- }
- ],
+ "outputs": [],
"source": [
"# Same with log scale\n",
"chart = helper.facetted_growth_plot(\n",