Hi, I'm creating my limma design matrices by hand and am just wondering whether the sample names in the matrix actually matter or whether they may be arbitrary as long as they reflect the ascending order of array columns of my expression set. E.g.: row a of the design matrix would correspond to array#1, row b to array#2 and so forth. Is it okay to do it this way or is it absolutely necessary to write the complete array/sample name? Thanks a lot for any advice! Cheers Karl __________________________________________ Max-Delbrück-Centre for Molecular Medicine FG Dörken Haematology, Oncology and Tumorimmunology Robert-Rössle-Str. 10 [[alternative HTML version deleted]]

On Fri, Oct 23, 2009 at 6:26 AM, koechert, karl <karl.koechert@mdc- berlin.de=""> wrote: > Hi, > > I'm creating my limma design matrices by hand and am just wondering whether > the sample names in the matrix actually matter or whether they may be > arbitrary as long as they reflect the ascending order of array columns of my > expression set. E.g.: row a of the design matrix would correspond to > array#1, row b to array#2 and so forth. Is it okay to do it this way or is > it absolutely necessary to write the complete array/sample name? > > Sample names are not important, at least not for limma. As you suggest, the row ordering is the important point. Sean [[alternative HTML version deleted]]