Does PopART software consider indel information when constructing haplotype networks?

[chywish]

Hello, thank you very much for developing this PopART software.
I have a question regarding its usage. I want to perform haplotype network analysis based on population-level SNPs and indels data. I have already converted the VCF format data to FASTA format, and pre-processed the indels information (padding with equal length bases).
However, I am unsure if the haplotypes calculated by PopART include indel information.
I couldn't find relevant information in your publicly available manual.
Could you please clarify this for me? Thank you.

I have another question: How to handle individuals with heterozygous genotypes. Thank you.