Hi, I was using ANNOVAR to convert multi sample vcf file to avinput files (annovar format). I used this command :
sudo perl convert2annovar.pl -format vcf4 -allsample -include multisamples1000gPhase1.vcf > multisamples1000gPhase1.avinput
But I got empty avinput files corresponding to 1092 samples, the original vcf file was around 26GB. Why did this happen??? Can someone explain?