I have previously used DnaSP -> NEXUS file -> PopART which produced high quality outputs and the ability to move the network and placed in a way you so desire. However, creating nexus files and then creating matrices for PopART is a very cumbersome processes. So I have been trying to avoid this.
Recently I've started using R as it is a far more efficient means to create haplotype networks. However, the outputs seem to be of very low quality. Does anybody have a way to solve this?
I know there are anti-aliasing issues in windows R.
Any solutions?