Hi I have a bcf file generated using bcftools(samtools), which I further wanted to convert to vcf format. I used the following command:
bcftools view ../bcf/test.bcf | vcfutils.pl varFilter -D 8000 > test.vcf
The corresponding vcf file only generated the header and not the body.
I have used this command 2 months before on a different dataset and it worked well. I have the same Human fasta index file as a refernce. I can not figure out what is the problem now.
Can anyone help me??
I look forward to your reply