linkage analysis for exome sequence data

Question

[basalganglia]

Hello everyone,

I am beginner for linkage analysis and I have exome sequence data. So I want to ask:

1. Which program should I use for linkage analysis (Plink, Merlin,etc..)? Which one is efficient?
2. How can I convert vcf file for linkage analysis file ? Could you please explain conversion of file for linkage analysis tool in a detail? I don't know anything about that. Onar is there any tool to convert vcf file for linkage?

There is a post about that: Linkage With Whole Exome Data But I don't understand :)

Thanks,
BG