Try increasing cex, which may alleviate resolution issues, if that is the problem. Gordon On Fri, 31 Jan 2014, Gordon K Smyth wrote: > By default, plotSmear() uses round circles (pch=19) for all points. > > You may be seeing a glitch in the resolution of your plot device, but it is > not a plotSmear() feature. plotSmear() uses the same symbol for all points. > > Also, could you please upgrade to the current release (edgeR 3.4.2): > > http://www.bioconductor.org/packages/release/bioc/html/edgeR.html > > Gordon > >> Date: Wed, 29 Jan 2014 12:07:44 +0000 >> From: Dave Gerrard <david.gerrard at="" manchester.ac.uk=""> >> To: "bioconductor at r-project.org" <bioconductor at="" r-project.org=""> >> Subject: [BioC] EdgeR plotSmear varied size fo de.tag points >> >> When I use plotSmear (edgeR_3.2.4), I notice that the point size for for >> some of the de.tags are different to the others. Most are regular filled >> circles, the same size as the non-de genes but then some are small '+' >> symbols. Does anyone know what this signifies and how it is controlled. >> >> Thanks, >> Dave Gerrard >> >> >> -- >> david.gerrard at manchester.ac.uk >> >> Bioinformatics | The University of Manchester | Michael Smith Building | >> Room B.1081 | Oxford Road | Manchester | M13 9PT >> T: 0161 275 1565 >> >> http://personalpages.manchester.ac.uk/staff/David.Gerrard/ > ______________________________________________________________________ The information in this email is confidential and intend...{{dropped:4}}