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Add scenario summary report #1

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aad8658
add scenario summary markdown
bwentl Apr 3, 2020
44f48b0
add scenario summary report and data export
bwentl Apr 3, 2020
15cacd4
adjust start date of geom_rect box
bwentl Apr 3, 2020
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8 changes: 4 additions & 4 deletions SimpleSocialDistanceModel.Rmd
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Original file line number Diff line number Diff line change
Expand Up @@ -554,8 +554,8 @@ ggplot(data=filter(mydf, times<80)) + geom_line(aes(x=dates,y=(median+imports[1:
mydf=getAllCasesbyDay2(newsol,times,nReps)
ggplot(data=filter(mydf, times<80)) + geom_line(aes(x=dates,y=(median+imports[1:80])/N))+
geom_ribbon(aes(x=dates,ymin = (lower25+qpois(0.25,2))/N, ymax = (upper75+qpois(0.75,2))/N), alpha = 0.5,fill="chocolate2") +
geom_rect(aes(xmin=lubridate::ymd("2020-03-14")+15,
xmax=lubridate::ymd("2020-03-15")+60),
geom_rect(aes(xmin=lubridate::ymd("2020-03-12")+15,
xmax=lubridate::ymd("2020-03-12")+60),
ymin=0, ymax=3e-4,
fill='blue', alpha=.005) +
theme_bw()+ylab("Fraction infectious")
Expand Down Expand Up @@ -615,8 +615,8 @@ ggplot(data=filter(mydf, times<80)) + geom_line(aes(x=dates,y=(median+imports[1:
mydf=getAllCasesbyDay2(newsol,times,nReps)
ggplot(data=filter(mydf, times<80)) + geom_line(aes(x=dates,y=(median+imports[1:80])/N))+
geom_ribbon(aes(x=dates,ymin = (lower25+qpois(0.25,2))/N, ymax = (upper75+qpois(0.75,2))/N), alpha = 0.5,fill="chocolate2") +
geom_rect(aes(xmin=lubridate::ymd("2020-03-14")+15,
xmax=lubridate::ymd("2020-03-15")+76),
geom_rect(aes(xmin=lubridate::ymd("2020-03-12")+15,
xmax=lubridate::ymd("2020-03-12")+76),
ymin=0, ymax=3e-4,
fill='blue', alpha=.005) +
theme_bw()+ylab("Fraction infectious")
Expand Down
85 changes: 40 additions & 45 deletions SimpleSocialDistanceModel.html
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