questions on kbo call vcf output

[colindaven]

Hello again Tommi,

I've just been looking into kbo call across more targets and genomes and have a few questions.

This is not a feature request, just for clarity.

Commonly, results look like this

chr1 15692316 . CTTGAACCCTAAATCCTAAACCC C . . INDEL GT 1

• why all INDELs and no SNPs ? (edit - this seems to just be my data so far, SNPs can be detected looking at the docs and examples)
• Maybe insertions and deletions could be labelled INS and DEL instead ?
• What is the max insert or del length ? They seem small like under 20-30bp at a cursory glance.

I ask about the last since I failed to find a known 120bp insertion/deletion on a 2mb region across 2 genomes with kbo kmer 51 and 21. My idea was kmer size 21 would make the tool more sensitive - but no results here.

Thanks,
Colin