data and code first

julianfaraway · Jan 6, 2022 · 7e55731 · 7e55731
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diff --git a/README.md b/README.md
@@ -6,6 +6,22 @@ Researchers around the world have demonstrated correlations between measurements
 
 ## Data
 
+- Scottish RNA data can be found at
+<https://informatics.sepa.org.uk/RNAmonitoring
+- Case data can be downloaded from
+<https://www.opendata.nhs.scot/dataset/weekly-covid-19-statistical-data-in-scotland>
+- ONS Scottish infection survey data from <https://www.ons.gov.uk/peoplepopulationandcommunity/healthandsocialcare/conditionsanddiseases/datasets/covid19infectionsurveyscotland/2021>
+- USA data from <https://github.com/biobotanalytics/covid19-wastewater-data>
+and displayed at <https://biobot.io/data/>.
+
+CSVs derived from these are in the [data directory](data)
+
 ## Code
 
+- Process Scottish cases and RNA counts: [R script](scotland/scotproc.R)
+- Modelling Scottish data: [Rscript](scotland/scotmodel.R) and [output](scotland/scotmodel.md)
+- Process the USA data [R script](usa/usaproc.R)
+- Model the USA data [R script](usa/usamodel.R) and 
+[output](usa/usamodel.md)
+
 
diff --git a/data/cases_by_county.csv b/data/cases_by_county.csv
diff --git a/data/isd.csv b/data/isd.csv
@@ -0,0 +1,58 @@
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diff --git a/data/scot.rda b/data/scot.rda
diff --git a/data/scotcases.csv b/data/scotcases.csv
diff --git a/data/scotpop.csv b/data/scotpop.csv
diff --git a/data/scotrna.csv b/data/scotrna.csv
diff --git a/data/usa.rda b/data/usa.rda
diff --git a/data/wastewater_by_county.csv b/data/wastewater_by_county.csv
diff --git a/scotland/figs/aggscot-1..svg b/scotland/figs/aggscot-1..svg
diff --git a/scotland/figs/allgamplot-1..svg b/scotland/figs/allgamplot-1..svg
diff --git a/scotland/figs/allhabgam-1..svg b/scotland/figs/allhabgam-1..svg
diff --git a/scotland/figs/allhabgam-2..svg b/scotland/figs/allhabgam-2..svg
diff --git a/scotland/figs/allhabgam-3..svg b/scotland/figs/allhabgam-3..svg
diff --git a/scotland/figs/allhabgam-4..svg b/scotland/figs/allhabgam-4..svg
diff --git a/scotland/figs/allrelhab-1..svg b/scotland/figs/allrelhab-1..svg
diff --git a/scotland/figs/frac-1..svg b/scotland/figs/frac-1..svg