search for: normailz

Hi, I am new to R, I am doing quantile normalization with a dat matix of 384X124 and I find that while computing the quantile normailzation it introduces 'NA' into some of the cells, can someone help me to overcome this problem ? This is the command that goes like upto g62 for 124 colomns >g1 <- normalize.quantiles(exprs(MSExpr[,1:2])) For a small set of data there is no problem, but for a large set of data, it i...

...by each group So in pseudo-code for(group in groups){ if(column_name = regex(group_.*)){ data[column_name] = scale(data[group,column_name]) } } This way I get "group wise" normalization of my data, but still have the original values which I will normailze "database wide" for some comparisons. Can anybody help solve this one? -N [[alternative HTML version deleted]]

...r look at my data and how my experiments are constructed. (That's a very "Good Thing") So, on to the question... I'm scaling data based on groups. I have it working well in a nice loop. (This WORKS, but if someone has a faster/cleaner way, I'd be curious.) #group-wide normailzation groups <- unique(rawdata$group) group_names = grep('norm_',names(rawdata)) for(group in groups){ for(name in group_names){ rawdata[rawdata$code==group, name] <- c(scale(rawdata[rawdata$code==group, name])) } } My problem is that if the particular list of dat...