maggs-x

Hi, I'm running vcfwave on a pangenome vcf generated with cactus-mini graph pipeline. vcfbub has already been run on it. I'm getting the following error: vcfwave 1.0.7 processing... [WFA::Penalties] Match...

**Describe the issue** Hi, I recently ran snpeff on a vcf generated from mini graph-cactus pangenome pipeline. I noticed that the intron_variant count and INTRON count in the regional table...

strange handling of SVs by bcftools norm --fasta-ref

3

Hi bcftools, I'm part of a project building a pangenome and we noticed some strange output by bcftools norm in terms of how it handles structural variants. I thought you...