Merge branch 'main' of https://git.dendroalsia.net/ben/COVID

Signed-off-by: Ben Varick <ben@dendroalsia.net>

.gitignore

@@ -9,8 +9,11 @@ COVID.py
 #ignore all the data files
 data/*
 
+#except the population one
+!data/co-est2020-alldata.csv
+
 #ignore the figure files
 figures/*
 
-#except the population one
-!data/co-est2020-alldata.csv
+#except an example
+!figures/select_active_cases.png

COVID.R

@@ -416,12 +416,12 @@ ggsave(filename = "WI_active_cases.png" ,
 
 ggplot() +
   geom_line(data = us_county_data %>% 
-              filter(county_state %in% c("Clallam, Washington", "Cook, Illinois", "Milwaukee, Wisconsin", "Dane, Wisconsin", "Alameda, California", 'Salt Lake, Utah')),
+              filter(county_state %in% c("Clallam, Washington", "Cook, Illinois", "Milwaukee, Wisconsin", "Dane, Wisconsin", 'Salt Lake, Utah')),
             aes(x = date,
                 y = active_estimate,
                 color = county)) +
   geom_label_repel(data = us_county_data %>% 
-                     filter(county_state %in% c("Clallam, Washington", "Cook, Illinois", "Milwaukee, Wisconsin", "Dane, Wisconsin", "Alameda, California", 'Salt Lake, Utah'),
+                     filter(county_state %in% c("Clallam, Washington", "Cook, Illinois", "Milwaukee, Wisconsin", "Dane, Wisconsin", 'Salt Lake, Utah'),
                             date %in% maxdate),
                    aes(x = date + 0.5,
                        y = active_estimate,
@@ -454,7 +454,7 @@ ggplot() +
         plot.subtitle = element_text(color = "grey50"),
         plot.caption = element_text(color = "grey50")) +
   coord_cartesian(ylim = c(0,NA))
-ggsave(filename = "Important_active_cases.png" , 
+ggsave(filename = "select_active_cases.png" , 
        path = paste(getwd(),"/figures/", sep = ""), 
        device = "png",
        width = 11,