Question: about ECDF in ggplot2
0
gravatar for Bogdan
18 months ago by
Bogdan910
Palo Alto, CA, USA
Bogdan910 wrote:

Dear all,

I would appreciate having your advice/suggestions/comments on the following :

1 -- starting from a vector that contains the LENGTHS of DELETIONS (numerically, the values are from 1 to 10 000)

2 -- shall I display the ECDF by using the R code and some "limits" :

**BREAKS = c(0, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100, 200, 300, 400, 500,
           1000, 10000, 100000, 1000000, 10000000, 100000000, 1000000000)


ggplot(x, aes(LENGTH)) +
          stat_ecdf(geom = "point") +
          scale_x_continuous(name = "LENGTH of DEL",
                             breaks = BREAKS,
                             limits=c(0, 500))**

3 -- I am getting the following warning message : "Warning message: Removed 109 rows containing non-finite values (stat_ecdf)."

The question is : are these 109 values removed from VISUALIZATION as i set up the "limits", or are these 109 values removed from statistical CALCULATION?

4 -- in contrast, shall I use the standard R functions plot(ecdf), there is no "warning mesage"

**plot(ecdf(x$LENGTH), xlab="DEL LENGTH", 
                     ylab="Fraction of DEL", main="DEL", xlim=c(0,500),
                     col = "dark red")**

Thanks a lot !

ggplot2 • 645 views
ADD COMMENTlink written 18 months ago by Bogdan910
The question is : are these 109 values removed from VISUALIZATION as i set up the "limits", or are these 109 values removed from statistical CALCULATION?

Try removing "limits" and then plot it. If it still throws the error, then your assumption is correct.

ADD REPLYlink written 18 months ago by cpad011212k
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