There used to be a function in affy called readCelFile, which can read the pixel-level STDEV of the intensity measure of each square (probe) on the array. Nowadays it becomes readAffyBatch. Can we still get the image-level STDEV somehow? Thanks!

Use affxparser or affyio Kasper On Apr 12, 2007, at 5:21 PM, Simon Lin wrote: > There used to be a function in affy called readCelFile, which can > read the > pixel-level STDEV of the intensity measure of each square (probe) > on the > array. > > Nowadays it becomes readAffyBatch. > > Can we still get the image-level STDEV somehow? > > Thanks! > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/ > gmane.science.biology.informatics.conductor

library(affyio) ?read.celfile library(affxparser) ?readCel b On Apr 12, 2007, at 8:21 PM, Simon Lin wrote: > There used to be a function in affy called readCelFile, which can > read the > pixel-level STDEV of the intensity measure of each square (probe) > on the > array. > > Nowadays it becomes readAffyBatch. > > Can we still get the image-level STDEV somehow? > > Thanks! > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/ > gmane.science.biology.informatics.conductor

If you use ReadAffy() with sd=TRUE then you'll get the STDEV in the se slot in addition to the intensities in your AffyBatch. On Thu, 2007-04-12 at 19:21 -0500, Simon Lin wrote: > There used to be a function in affy called readCelFile, which can read the > pixel-level STDEV of the intensity measure of each square (probe) on the > array. > > Nowadays it becomes readAffyBatch. > > Can we still get the image-level STDEV somehow? > > Thanks! > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor