Easy question here. I am split up my vcf file up by chromosome to try and save some time. I want to combine the files now to have one complete vcf file with all the chromosomes. Do I wanted to merge the files or do I want to concatenate the files?
I just ran the command
cat *.vcf > cat.chr1.chr2.vcf
This was only on two of the chromosomes and when I went to look at the files, there was only data for the first chromosome and nothing for the second. Am I doing something wrong here? I could also try vcf tools if this "cat" command wont work for what I am trying to do.