Error with plating efficiency using newton.LD.plating

[vanessabaldin]

Hi, I’m using rSalvador to calculate mutation rates and I keep having an error using the newton.LD.plating function.
I am calculating the plating efficiency dividing plated volume by total culture volume. I am plating 1 mL from a total culture of 1.5 mL so my plating efficiency is 0.6667. Using my data and this plating efficiency this error keeps coming up:

**> mc_mutT_1946
[1] 10  8  3 10  6  0  9  9
> rsalvador::newton.LD.plating(mc_mutT_1946, 0.6666666667)
Error in hypergeo(1, 2, n + 2, 1 - e) : 
  could not find function "hypergeo"**

I don’t understand why this is happening and would appreciate some help. Thanks in advance.
Vanessa

[Eric Zheng]

Hi rSalvador user,

As the Beginner's Guide (p.1) says, you need to install the R package "hypergeo" by executing

install.packages('hypergeo')

You only need to install it once. Now, the rest is straightforward:

mydata=c(10, 8, 3, 10, 6, 0, 9, 9)
mydata
[1] 10 8 3 10 6 0 9 9
newton.LD.plating(mydata,e=0.6667)
[1] 3.791294

Best regards,
Qi Zheng