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When you click the Knit button a document will be generated that includes both content as well as the output of any embedded R code chunks within the document. You can embed an R code chunk like this:
## Loading required package: ggplot2
##
## Attaching package: 'plotly'
## The following object is masked from 'package:ggplot2':
##
## last_plot
## The following object is masked from 'package:stats':
##
## filter
## The following object is masked from 'package:graphics':
##
## layout
#dima.inter==1
cow<- filter(mcaTreesRatioLong, CoW == "typical", diam.inter==0.001, diam.intra==0.001)
gg <- ggplot(cow, aes(flowratiostroke, ArteryName,color = ArteryName)) +
geom_point(aes(size=flowratiostroke,frame=Experiment)) +xlim(-5,5)+
scale_x_continuous()
## Warning: Ignoring unknown aesthetics: frame
## Scale for 'x' is already present. Adding another scale for 'x', which
## will replace the existing scale.
ggplotly(gg)
#dima.inter==1
cowAcom<- filter(mcaTreesRatioLong, CoW == "Acom", diam.inter==0.001, diam.intra==0.001)
gg <- ggplot(cowAcom, aes(flowratiostroke, ArteryName,color = ArteryName)) +
geom_point(aes(size=flowratiostroke,frame=Experiment)) +xlim(-5,5)+
scale_x_continuous()
## Warning: Ignoring unknown aesthetics: frame
## Scale for 'x' is already present. Adding another scale for 'x', which
## will replace the existing scale.
ggplotly(gg)
# A1 missing
#dima.inter==1
cowA1<- filter(mcaTreesRatioLong, CoW == "LeftA1", diam.inter==0.001, diam.intra==0.001)
gg <- ggplot(cowA1, aes(flowratiostroke, ArteryName,color = ArteryName)) +
geom_point(aes(size=flowratiostroke,frame=Experiment)) +xlim(-5,5)+
scale_x_continuous()
## Warning: Ignoring unknown aesthetics: frame
## Scale for 'x' is already present. Adding another scale for 'x', which
## will replace the existing scale.
ggplotly(gg)
Note that the echo = FALSE
parameter was added to the code chunk to prevent printing of the R code that generated the plot.