Analysis repository for "Parallel connectivity and genomic divergence in Mediterranean clingfishes..."

This repository contains the analysis scripts, workflow files, and intermediate outputs associated with the preprint:Wagner M., Koblmüller S., Droin A., Klar N., Bračun S., Zogaris S., Sefc K.M., & Svardal H. (2026). Parallel connectivity and genomic divergence but heterogeneous demographic history in sympatric Mediterranean clingfishes.The study investigates patterns of marine connectivity, population structure, genomic divergence, phylogeography, and demographic history in Mediterranean clingfishes of the genus Gouania. Analyses combine whole-genome resequencing of G. orientalis and G. hofrichteri, Lagrangian particle drift simulations, mitochondrial phylogeographic analyses across all five described Gouania species, and demographic reconstructions using MSMC2.The archive contains the local analysis environment used to generate the results presented in the manuscript, including scripts, workflow files, parameter settings, summary statistics, intermediate outputs, and figure-generation code. These materials are provided to facilitate reproducibility and transparency of the computational analyses.Raw sequencing data and associated metadata are available through the repositories cited in the manuscript. Detailed methodological descriptions, software versions, and analytical parameters are provided in the preprint.Please cite both this Figshare repository and the associated preprint when using these materials.