Hi,

Should I annotate the vcf file with multiple databases e.g. dbSNP, 1000genome, ClinVar and dbNSFP if the panel contains mostly coding and some intronic regions? or does dbSNP includes all SNPs in other databases as well?

snpsift page only show an example for annotating using one database:

java -jar SnpSift.jar annotate dbSnp132.vcf variants.vcf > variants_annotated.vcf

Can Snpsift annotate the vcf using multiple databases at once? or it has to be done one by one?

Thanks