Positions of variants are not identical between the *.vcf output and the standard *.aldy

[Taalouane]

Hello, The genomic positions of variants are not identical between the *.vcf output and the standard *.aldy output. The positions in the VCF file are correct, but the output in the *aldy file is always shifted by 1. I have tested several BAM files (as input) from gene panels, but I always get the same results

Here is the command used: aldy genotype -p wxs --genome hg38 sample.bam -o sample.aldy Has this problem been encountered before? Any ideas on how to solve it?"

Thanks