Hi, a substantially revised version of arrayQualityMetrics is available. It has a number of new features: - improved interactivity of the plots; expandable/collapsible sections - rationalised outlier detection and reporting - friendlier handling of the dependence on svg (should now be transparent to most users, especially on Windows). If you use the package, or want use it, it is worth installing the version from the devel branch, not from the last release, even on R 2.12.x. If you use R-devel (the future R 2.13), then you can simply use biocLite to install it. If you use 2.12.x, go to http://www.bioconductor.org/help/bioc- views/devel/bioc/html/arrayQualityMetrics.html and download the package, install it, as well as those dependencies that you need. A couple of example reports (from the package vignette) are here: http://www-huber.embl.de/users/whuber/bioc-list/110220 Given the diversity of datasets and use cases that people have, I am sure there is still some scope for fine-tuning of the report presentation. I'd be very happy about any feedback on this, or any other matter. Best wishes Wolfgang Huber EMBL http://www.embl.de/research/units/genome_biology/huber