hrishikesh deshmukh wrote: > Hello All, > > I have a bunch of .CEL files, i want to filter > intensity values: > > >>1) PM, MM has to be between 200 to 20000 units. >>2) PM can be < 200, MM should be <= 20000 units. >>3) MM can be < 200, PM should be <= 20000 units. Well, I guess the third time is a charm ;-D. I think the main reason you have yet to get a response is that your question is not very clear. Do you simply want to filter the PM and MM values and output them? Do you want to only use those PM/MM pairs that fulfill these criteria to compute expression values? Conversely, if you only want to compute expression values for genes whose PM/MM values fulfill these criteria, could you do the filtering after computing expression values? If, for a given probe the PM value is outside one of these bounds do you want to filter out only that one PM value, or the corresponding PM values for all the other chips as well? Depending on your answers to these questions, this can be a simple thing or quite difficult. Have you read 'An Introduction to R'? This covers subsetting, and should get you well on your way to doing something. However, since it is not clear what you want, this may not be sophisticated enough. > > >>How do i apply these conditions to 17 .CEL files?! > > then write the result to a file (.txt/.xls). > > >>How do i extract sequence information for the list > > which i get from the above step. > > Thanks, > Hrishi > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor -- James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109