divsalCAS

divsalCAS is a computational methodology used for the analysis of divergence, selection, and ancestry in biological sequences. It is designed to handle complex evolutionary scenarios, including those involving horizontal gene transfer and population structure. The core of divsalCAS lies in its ability to partition a gene or genome into segments that exhibit distinct evolutionary histories. This partitioning allows for a more nuanced understanding of how different parts of a genome evolve under varying selective pressures or demographic events.

The method employs statistical models to infer the most likely ancestral state for each segment and to estimate the rates of evolutionary change. By comparing these inferred histories across different taxa or populations, researchers can identify regions under positive selection, purifying selection, or experiencing neutral drift. Furthermore, divsalCAS can detect evidence of recombination and introgression, which are crucial for understanding the acquisition of new genetic material and the mixing of lineages.

Applications of divsalCAS include identifying genes that have undergone rapid adaptation, tracing the origin and spread of traits, and reconstructing phylogenetic relationships in the presence of gene flow. Its modular approach makes it adaptable to various types of genomic data and evolutionary questions. The computational framework aims to provide a robust and interpretable tool for population genetics and evolutionary genomics research.