Hi, I wish to draw a RLE plot from my expression dataset which already is preprocessed and has log transformed values. Is there an inbuilt function ( apart from the one in affy package that uses a PLMset ) that can calculate the medians and further deviations to output the RLE plot ? Thanks ! ------------------------------- This e-mail and any attachments are only for the use of the intended recipient and may be confidential and/or privileged. If you are not the recipient, please delete it or notify the sender immediately. Please do not copy or use it for any purpose or disclose the contents to any other person as it may be an offence under the Official Secrets Act. ------------------------------- [[alternative HTML version deleted]]

Hi, W/o guarantee that it is correct: If 'm' are your log transformed values then you can do: mn <- apply(m, 1, median) rle <- data.frame(sweep(m, MARGIN=1, STATS=mn, FUN='-')) boxplot(rle,...) Regards, Christian On 9/13/13 3:31 PM, QAMRA Aditi (GIS) wrote: > Hi, > > I wish to draw a RLE plot from my expression dataset which already is preprocessed and has log transformed values. Is there an inbuilt function ( apart from the one in affy package that uses a PLMset ) that can calculate the medians and further deviations to output the RLE plot ? > > Thanks ! > > ------------------------------- > This e-mail and any attachments are only for the use of the intended recipient and may be confidential and/or privileged. If you are not the recipient, please delete it or notify the sender immediately. Please do not copy or use it for any purpose or disclose the contents to any other person as it may be an offence under the Official Secrets Act. > ------------------------------- > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >