Dear Colleague, The 2nd International Congress on Image and Signal Processing (CISP 2009) and the 2nd International Conference on BioMedical Engineering and Informatics (BMEI 2009) will be jointly held in Tianjin, China, from 17 to 19 October 2009. We cordially invite you to submit a paper and/or an exhibition. Selected best papers will appear in SCI-indexed journal(s). The papers published in the proceedings will be included in the IEEE Xplore and submitted to Ei Compendex for indexing (CISP 2009 IEEE Catalog Number: CFP0994D; BMEI 2009 IEEE Catalog Number: CFP0993D). CISP?09- BMEI?09 is technically co-sponsored by the IEEE Engineering in Medicine and Biology Society. Tianjin is one of the four municipalities in China. It is a financial and commercial center in North China and is known for its numerous travel resources and rich history, such as the Huangyaguan Great Wall, Dule Temple, Panshan Mountain and Food Street. It takes only 30 minutes to travel between Tianjin and Beijing by high-speed train. The registration fee of US$420 includes lunches, dinners, and banquet. The previous CISP?09-BMEI?09 attracted over 2600 submissions from more than 30 countries. CISP?09-BMEI?09 aims to provide a high-level international forum for scientists and researchers to present the state of the art of biomedical engineering, biomedical informatics, multimedia, and signal processing. For more information, visit the conference web page: http://www.tjut.edu.cn/cisp-bmei2009 If you have any questions after visiting the conference web page, please email the secretariat at cisp2009 at tjut.edu.cn Join us at this major event in historic Tianjin !!! With best regards, CISP?09-BMEI?09 Organizing Committee P.S.: Kindly forward to your colleagues or students who may be interested. If you wish to unsubscribe, in which case we apologize, please reply with "unsubscribe bioconductor at stat.math.ethz.ch" in your email subject. Thanks.

Hello Bioconductor, I am using the read.maimages function from the limma package. But I want to read two more columns from the Imagene files than default. I have tried to use the other.columns variable to read the data and it works in principle, I get the data but not in a format I can use and the "other" option spoils my naming routine for the spots in the arrays. I'll show some code and ask how to get around it. In this experiment I have 3 slides with 14592 spots This is how I normally do it and each spot gets its id as the rowname RG.NQ <- read.maimages(file.NQ, source="imagene", names=target.NQ$Barcode, wt.fun=mywtfun(c(1,2,3,4,5,6,7)), columns=list(f="Signal Mean",b="Background Median")) rownames(RG.NQ) <- RG.NQ$genes[,6] dim(RG.NQ) [1] 14592 3 names(RG.NQ) [1] "R" "G" "Rb" "Gb" [5] "source" "Field.Dimensions" "weights" "printer" [9] "genes" Here follow the new code that gives me troubles RGp.NQ <- read.maimages(filep.NQ, source="imagene", names=targetp.NQ$Barcode, wt.fun=mywtfun(c(1,2,3,4,5,6,7)), columns=list(f="Signal Mean",b="Background Median"), other.columns=list(t="Signal Stdev",u="Background Stdev")) names(RGp.NQ) [1] "R" "G" "Rb" "Gb" [5] "source" "Field.Dimensions" "weights" "other" [9] "printer" "genes" names(RGp.NQ$other) [1] "G Signal Stdev" "G Background Stdev" "R Signal Stdev" [4] "R Background Stdev" And here starts the problems. How do I read variable names with white spaces \ or \\ do not work, and how do I recover the original format of the RGp.NQ object from the list RGp.NQ$other dim(RGp.NQ) [1] 14592 3 3 slides 14592 spots Furthermore I cannot make each spot have its id as rowname rownames(RGp.NQ) <- RGp.NQ$genes[,6] Error in dimnames(object$other[[a]]) <- value : object "object" not found If anyone knows a way around these troubles I'll appreciate it a lot because I need the Signal Stdev and the Background Stdev to evaluate the quality of each spot. Regards Peder Worning Best regards Exiqon A/S Peder Worning, Ph.D. Senior Scientist, Biomarker Discovery Telephone: +45 45650457 Telefax: +45 45661888 E-mail: pwo at exiqon.com Bygstubben 3 DK-2950 Vedbaek Denmark www.exiqon.com