Hi all,
I have some data as follows.
Cat1 Cat2 Cat3 COG Counts
A B C COG1 10
B D COG2 20
C COG3 30
D COG4 40
I would like to sum all the counts for each category:
A B C D
10 30 40 60
>CAT2COG<-
list(A="COG1",B=c("COG1","COG2"),C=c("COG1","COG3"),D=c("COG2","COG4"))
> COG2CAT<-
list(COG1=c("A","B","C"),COG2=c("B","D"),COG3=c("C"),COG4="D")
> df<-
data.frame(COGs=c("COG1","COG2","COG3","COG4"),counts=c(10,20,30,40))
I've been trying various version of apply and well as some crazy loops
(Eg. below).
Any help would be appreciated
Thanks,
Alison
> CATS<-names(CAT2COG)
> Catcounts<-rep(0,length(CATS))
> counter<-1
> for (i in CATS){
+ Catcounts[counter]<-CatCounts+df$counts[df[1,]=CAT2COG[i],]
Error: syntax error
> counter<-counter+1
> }
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