Hi, I'm using VIRUSbreakend recently with human tumor genome aligned with hg38 , thankfully it runs without any error, but in most of my dataset, ${TUMOR}.vcf.summary.tsv is empty and the vcf file only has header like this.
fileformat=VCFv4.2
CHROM POS ID REF ALT QUAL FILTER INFO FORMAT
But, ${TUMOR}.vcf.kraken2.report.viral.extracted.txt has raised candidate viruses like bellow.
Hi, I'm using VIRUSbreakend recently with human tumor genome aligned with hg38 , thankfully it runs without any error, but in most of my dataset, ${TUMOR}.vcf.summary.tsv is empty and the vcf file only has header like this.
But, ${TUMOR}.vcf.kraken2.report.viral.extracted.txt has raised candidate viruses like bellow.
Is this normal? Vcf is empty because VIRUSBREAKEND raised these viruses only as candidates and re-cauculated concordant reads from scratch?
thanks in advance! Hidehito