Petti Group
A differentiable version of Smith-Waterman implemented in JAX, enabling end-to-end learning of sequence alignments.
Petti et al., Bioinformatics 2022
Protein structure comparison with an interpretable alphabet based on local neighborhoods.
Zerefa et al., Bioinformatics 2025
Algorithms for splitting sequence families into dissimilar training and test sets.
Petti and Eddy, PLOS Computational Biology 2022
A penalized matrix decomposition approach for identifying sparse structure in genotype-phenotype maps with multiple traits.
Petti, Reddy and Desai, Genetics 2023