I am using the vcftools to extract data using a filter to exclude a list of snps: "list.txt".
vcftools --vcf A.vcf --exclude-positions list.txt --out /home/new_vcfs/A-new
The file it creates is always called "A-new.recode.vcf"
Does anybody knows if there is any way of controlling the name of the output file to something like: A-new.vcf? I do not want a point and the word record ".record" in the name of my output file name. After doing this I will merge the vcf files (more than 20).
I really appreciate your help