Annotated whole-genome SNP dataset (VCF) for Copadichromis mloto and C. virginalis

This dataset contains a whole-genome VCF file with biallelic SNPs for Copadichromis mloto and Copadichromis virginalis.Variants were filtered for quality, phased using Whatshap and Shapeit4, and annotated using SnpEff (reference: fAstcal1.2.105). The VCF includes 224 individuals sampled from Lake Malawi and Lake Malombe, with all multi-allelic sites and low-quality variants removed. This file is intended for downstream population genomic and evolutionary analyses including selection scans, demographic inference, and comparative genomics. File format: bgzipped VCF with tabix indexReference genome: fAstcal1.2Dataset published with submitted original report "Recent polygenic adaptation in heavily fished Malawi cichlids" - Molecular ecology (DOI upon acceptance)