Re: [R] Row wise function call.

From: Henrik Bengtsson <>
Date: Thu 01 Dec 2005 - 14:17:39 EST

Vasundhara Akkineni wrote:
> I have another issue.i have a function which calculates the log2(col i
> /col2) value, where i stands for columns 3,4,...etc.
> data<-read.table("table.txt", header=TRUE)
> iratio<-function(x){
> for(n in 3:ncol(data)){
> z<-log2(data[x,n]/data[x,2])
> }
> }
> Where x- the row number of the data frame(data).
> i want to store the ratios for each row in a object z, which can be
> accessed outside the function. How can i do this?

Just return the result at the end of the function. Since you want to return log-ratios for many pairs, I would suggest to stick them in a new data frame, or since they results are all of the same data type, a matrix instead. Example:

iratio <- function(rows) {

   # Create (pre-allocate) empty matrix poulated with NAs    z <- matrix(NA, nrow=length(x), ncol=ncol(data)-3+1);

   for(col in 3:ncol(data)) {
     z[,col-3+1] <- log2(data[rows,col] / data[rows,2])    }

   z; # or equivalent 'return(z)'; not often seen in R code. }

You should try to look into introductions to R (sorry I don't know any off hand, but just search google); this is all things you need to learn. Also, you learn a lot from reading other people's code snippets.

When you understand R better, you'll also realize that the above can be done in one line of code like this:

   z <- log2(data[rows,3:ncol(data)] / data[rows,2]);



PS. I haven't actually tested the above code in R; there might be typos. DS.

> Thanks,
> Vasu.
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> mailing list PLEASE do read the posting guide! Received on Thu Dec 01 14:23:32 2005

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