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Gene flow erodes spatial genomic clines while selection preserves adaptive loci over hundreds of generations
Spatial genetic clines suggest local adaptation, but whether they persist or erode over evolutionary time remains largely unknown. …
Vitória Horvath Miranda, Tiago da Silva Ribeiro, Joel M. Alves, Walter Eanes, Evgeny Brud, Krishna Veeramah, John E. Pool, Murillo F Rodrigues, Rodrigo Cogni
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Population-scale Ancestral Recombination Graphs with tskit 1.0
Ancestral recombination graphs (ARGs) are an increasingly important component of population and statistical genetics. The tskit library …
Ben Jeffery, Yan Wong, Kevin Thornton, Georgia Tsambos, Gertjan Bisschop, Yun Deng, E. Castedo Ellerman, Thomas B. Forest, Halley Fritze, Daniel Goldstein, Gregor Gorjanc, Graham Gower, Simon Gravel, Jeremy Guez, Benjamin C. Haller, Andrew D. Kern, Lloyd Kirk, Ivan Krukov, Hanbin Lee, Brieuc Lehmann, Hossameldin Loay, Matthew M. Osmond, Duncan S. Palmer, Nathaniel S. Pope, Aaron P. Ragsdale, Duncan Robertson, Murillo F Rodrigues, Hugo van Kemenade, Clemens L. Weiß, Anthony Wilder Wohns, Shing H. Zhan, Brian C. Zhang, Marianne Aspbury, Nikolas A. Baya, Saurabh Belsare, Arjun Biddanda, Francisco Campuzano Jiménez, Ariella Gladstein, Bing Guo, Savita Karthikeyan, Warren W. Kretzschmar, Inés Rebollo, Kumar Saunack, Ruhollah Shemirani, Alexis Simon, Chris Smith, Jeet Sukumaran, Jonathan Terhorst, Per Unneberg, Ao Zhang, Peter Ralph, Jerome Kelleher
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GPU accelerated population genetics statistics using pg_gpu
Population genetics summary statistics—diversity, divergence, linkage disequilibrium, selection scans, and dimensionality reduction—are …
Nathaniel S. Pope, Angel G. Rivera-Colón, Ananya Kapoor, Kevin Korfmann, Murillo F Rodrigues, Scott T. Small, Anastasia A. Teterina, Andrew D. Kern
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Bridging forward-in-time and coalescent simulations using pyslim
Ancestral Recombination Graphs (ARGs) provide an expressive and compact way to represent genetic variation data generated by …
Shyamalika Gopalan, Murillo F Rodrigues, Peter L. Ralph, Benjamin C. Haller
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