TOPCAT has a number of windows for performing data visualisation of various kinds. These share various characteristics which are described in the first subsection below; the specific windows themselves are described in the later subsections.
These visualisation windows are fairly sophisticated, and the plots can exported to vector (PDF, EPS) or image (GIF, JPEG, PNG) files for later presentation (see Appendix A.4.1.7). However, at least at present, TOPCAT does not claim to be a full end-to-end system for generating publication quality graphics, and hence lacks facilities for detailed configuration of axis labelling, font control, data annotation and so on. You may well find that you can use it to generate publication quality graphics, but if you need features which are not currently provided you may find it best to use TOPCAT to investigate your data and decide exactly what data you want to present, and then export the data in a form which can be used by a more output-oriented package.
Note that at version 4, TOPCAT introduces a rewrite of the plotting capabilities with significant new capabilities. These new windows are available in parallel with the classic plot windows, and documented in Appendix A.5. Initially, these Layer Plot windows are regarded as experimental and exist alongside the Classic Plot windows, but in future they may become the default visualisation tools in TOPCAT.