Genome-wide SNP and BayeScan Outlier VCF Datasets with SnpEff Annotation in <i>Labeo catla</i>

<p dir="ltr">This dataset provides genome-wide filtered SNPs, BayeScan candidate outlier SNPs, and SnpEff-based structural and functional annotations generated from a previously established 10,485-SNP genotyping-by-sequencing (GBS) dataset of 100 Labeo catla individuals representing six geographically differentiated riverine populations. Four VCF datasets are provided:</p><p dir="ltr">1. 10,485 filtered SNPs: Complete set of high-quality bi-allelic SNPs used for genome-wide analysis.</p><p dir="ltr">2. 326 BayeScan outlier SNPs: Candidate outlier loci identified using BayeScan at q < 0.05.

These loci showed significant evidence of locus-specific genetic differentiation.</p><p dir="ltr">3. SnpEff-annotated 10,485 SNPs: Complete filtered SNP dataset annotated using SnpEff v5.4c against the Labeo catla reference genome and annotation (GCA_012976165.1).</p><p dir="ltr">4. SnpEff-annotated 323 BayeScan outlier SNPs: The subset of 323 BayeScan outlier loci that could be successfully resolved to annotated genomic features and were retained for downstream structural and functional characterization.</p><p dir="ltr">Three of the 326 BayeScan-significant outlier loci could not be resolved to an annotated genomic feature and therefore were not included in the SnpEff-annotated outlier dataset.The files are provided to facilitate reproducibility, independent re-analysis, and reuse of the genomic variation and candidate differentiation-locus resources described in the associated study.</p>