I converted from plink file format to vcf file format using plinkseq by following instructions of the first response to this post.
The individual IDs in plink format (found in .ind or .pedind file) are crucial for my work, and I am concerned that they did not convert properly for me to use in vcf format. The list of individual IDs in my new plink/seq project reflect family IDs in my plink file (.pedind).
When converting from .bed to .vcf file format using plinkseq, how do I make sure that individual IDs in the new project are the same as individual IDs in plink (NOT family IDs)?
Thanks in advance!