Converting chromosomal positions to genetic positions in a nonhuman organism

Question

[Ella]

Hi all,

I have a VCF file and have used plink to generate .map file that looks like this for plasmodium:

I need to convert these chromosomal positions to genetic positions to be used with BEAGLE. I have a separate document with chromosomes, genetic positions (Kb), markers, and marker distances (Kb). However, it is from a different paper and contains different positions than the snps from my vcf. I was wondering what the best way is to combine these pieces of information and incorporate the genetic positions into the .map file. Thanks for any guidance you can provide.