BioC Community, As part of a routine project maintenance effort, we are evaluating the packages within "default" group in biocLite to ensure we are adequately representing a base installation of Bioconductor. There are currently 29 packages, plus their dependencies, that are installed when biocLite() is called with no arguments: > source("http://bioconductor.org/biocLite.R") > biocinstallPkgGroups() [1] "affy" "affydata" "affyPLM" "annaffy" [5] "annotate" "Biobase" "Biostrings" "DynDoc" [9] "gcrma" "genefilter" "geneplotter" "hgu95av2.db" [13] "limma" "marray" "matchprobes" "multtest" [17] "ROC" "vsn" "xtable" "affyQCReport" [21] "edd" "globaltest" "makecdfenv" "pamr" [25] "siggenes" "sma" "statmod" "tkWidgets" [29] "widgetTools" How well do you think this list refects the core of Bioconductor functionality? In order to avoid unnecessary conflict amongst the user community, please send me a private e-mail stating which packages you believe should be included in and/or removed from the "default" list. In a few weeks I will send a follow up email that summarizes our findings. In order to guide your responses, you can refer to the package download stats located at http://bioconductor.org/packages/stats Thanks in advance for any assistance you can provide. Patrick