1. To my knowledge, no and no. 2. To do this you would have to hack the sources to return the row medians from medianpolish. 3. http://www.bioconductor.org/repository/devel/package/Source//affy_1.3. 19.tar.gz HTH, Jim James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 >>> <adumas@ucla.edu> 10/06/03 09:33PM >>> Hi all! 1. How about Outlier detection in Li-Wong model ? Does expresso() automatically include this procedure ? Or Is there anyway I can turn on/off ? 2. Is it possible to get measures of probe affinity effect(probe pattern) in RMA model? 3. Where can I download C or R source code for RMA ? Thank you a lot in advance, best MyungShin Oh _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor

On Tue, 7 Oct 2003, James MacDonald wrote: > 1. To my knowledge, no and no. fit.li.wong, the function expresso calls, has an option remove.outliers by default its TRUE. you want to make it FALSE. you can do this via the summary.param argument in expresso as explained in the help page. > 2. To do this you would have to hack the sources to return the row > medians from medianpolish. > 3. > http://www.bioconductor.org/repository/devel/package/Source//affy_1. 3.19.tar.gz > > HTH, > > Jim > > > > James W. MacDonald > Affymetrix and cDNA Microarray Core > University of Michigan Cancer Center > 1500 E. Medical Center Drive > 7410 CCGC > Ann Arbor MI 48109 > 734-647-5623 > > >>> <adumas@ucla.edu> 10/06/03 09:33PM >>> > Hi all! > > 1. How about Outlier detection in Li-Wong model ? > Does expresso() automatically include this procedure ? > Or Is there anyway I can turn on/off ? > > 2. Is it possible to get measures of probe affinity effect(probe > pattern) > in RMA model? > > 3. Where can I download C or R source code for RMA ? > > Thank you a lot in advance, > best > MyungShin Oh > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor >