Dear Bioconductors, I would like to generate a scatter plot of single colour array data where; 1) up-regulated genes with FDR <= 0.05, points are coloured in red 2) down-regulated genes with FDR <= 0.05, points are coloured in blue 3) all other points are in green/other colour I know I can do volcano straight from Limma but a simple scatter plot with colours would be useful. Thanks. [[alternative HTML version deleted]]

Using a combination of plot() with points() will probably do what you want. Sean On Tue, May 31, 2011 at 10:07 AM, john herbert <arraystruggles at="" gmail.com=""> wrote: > Dear Bioconductors, > I would like to generate a scatter plot of single colour array data where; > > 1) up-regulated genes with FDR <= 0.05, points are coloured in red > 2) down-regulated genes with FDR <= 0.05, points are coloured in blue > 3) all other points are in green/other colour > > I know I can do volcano straight from Limma but a simple scatter plot with > colours would be useful. > > Thanks. > > ? ? ? ?[[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >