Genetic diversity and signature of divergence in the genome of grapevine clones of Southern Italy varieties_Merged_VCF
The VCF file merging SNP data points derived from the two datasets "Campania_unfiltered" and "Apulia_unfiltered", generated by ddRADseq and GBS approaches respectively.
Steps to reproduce
After removing the duplicates, bcftools +fixref (https://samtools.github.io/bcftools/howtos/plugin.fixref.html) was used to fix the inconsistencies in reference (REF) – alternative (ALT) alleles between the two VCF files. Then the vcf-merge utility of VCFtools (Danecek et al. 2011) was used.