Re: [R] Sum of sd between matrix cols vs spearman correlation between them

2012-04-07 Thread ali_protocol
Hi Petr, Thank you. Yes, normalized.matrix" and "normalized" are the same, my mistakes. Operators: like Cyclic loess normalization and quantile Normalization, from limma or affy packages. Would cv= sd/mean be a better replacement for sd? On 4/5/12, Petr Savicky [via R] wrote: > > > On Thu, Apr

Re: [R] Sum of sd between matrix cols vs spearman correlation between them

2012-04-05 Thread Petr Savicky
On Thu, Apr 05, 2012 at 07:46:52AM -0700, ali_protocol wrote: > Hi all, > > I have a matrix (n*2), I want to compare 2 operators (2 normalization for > array results) on these matrix. > The 2 columns should ideally become the same after operations > (normalization). So to compare operations, >

[R] Sum of sd between matrix cols vs spearman correlation between them

2012-04-05 Thread ali_protocol
Hi all, I have a matrix (n*2), I want to compare 2 operators (2 normalization for array results) on these matrix. The 2 columns should ideally become the same after operations (normalization). So to compare operations, I do this for each normalization: s= sum (apply (normalized.matrix, 2,sd))