ArticleBioinformatics (Oxford, England)2026
AdmixLD: fast genome-scale inference of ancestry disequilibrium in hybrid zones.
Article in Bioinformatics (Oxford, England), 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
summaryHybrid zones represent powerful natural systems for studying reproductive isolation and speciation. One key genomic signature of genetic incompatibilities and epistatic interactions is linkage disequilibrium (LD)-non-random associations between loci from different lineage backgrounds, generated by selection against maladaptive allele combinations. However, admixture alone induces strong genome-wide LD in hybrid populations, obscuring selection-driven signals. Here, we present AdmixLD, a fast, scalable C++ tool for genome-wide LD scanning in hybrid zones that estimates LD using partial correlation to control for individual hybrid index. By removing admixture-driven covariance, AdmixLD enhances detection of locus-specific associations and enables genome-scale identification of candidate barrier loci and interacting genomic regions. AVAILABILITY: The software and its code source are available at https://github.com/yzfranci/AdmixLD, and scripts for the data analysis are available at https://github.com/yzfranci/AdmixLDAnalysis.
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