I have an experiment with 101 Afymetrix SNP6 samples. The analysis worked fine following the steps in the vignette. But for some samples when looking at the chromosome explorer there is a very high variability resulting in a high number of segments (10000-25000 vs. 100-1000 for the rest). The segments are distributed over all chromosomes. You can find an example image at http://imiblinux05.uni-muenster.de/segmentation.png
Does anyone have an explanation, what might went wrong with these samples or how to identify and filter out these samples in a previous step? The density and PMA/PMB plots look very similar to the ones from the other samples. Thanks, Christian -- When reporting problems on aroma.affymetrix, make sure 1) to run the latest version of the package, 2) to report the output of sessionInfo() and traceback(), and 3) to post a complete code example. You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group with website http://www.aroma-project.org/. To post to this group, send email to aroma-affymetrix@googlegroups.com To unsubscribe and other options, go to http://www.aroma-project.org/forum/
