Program to make a haplotype network for a specific gene Currently my lab manually uses pop art to make the network after using PHASE to id an individual's alleles. Example:


I just feel like there's got to be a better, more time effective way to do this.
This is a haplotype map, where each node is proportional to the frequency of a given allele. The formal tool to do this is Network 5 found here. The problem with manaul haplotype maps is the area of the node should be proportional to the frequency, if this is not accurate it could be perceived to be misleading. 

The approach for looking at each parsimonious state along a branch is a phylogenetics method which is performed via MacClade 4.0 ... requires an old Mac though.