Publications by authors named "Baris Ekim"

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Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer.
Barış Ekim, Bonnie Berger, Rayan Chikhi

October 2021

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Graph-based deep reinforcement learning for haplotype assembly with Ralphi.
Enzo Battistella, Anant Maheshwari, Barış Ekim, Bonnie Berger, Victoria Popic

Genome Res· December 2025

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ralphi: a deep reinforcement learning framework for haplotype assembly.
Enzo Battistella, Anant Maheshwari, Barış Ekim, Bonnie Berger, Victoria Popic

bioRxiv· February 2025

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Designing efficient randstrobes for sequence similarity analyses.
Moein Karami, Aryan Soltani Mohammadi, Marcel Martin, Barış Ekim, Wei Shen

Bioinformatics· March 2024

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Efficient mapping of accurate long reads in minimizer space with mapquik.
Bariş Ekim, Kristoffer Sahlin, Paul Medvedev, Bonnie Berger, Rayan Chikhi

Genome Res· July 2023

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Efficient minimizer orders for large values of using minimum decycling sets.
David Pellow, Lianrong Pu, Bariş Ekim, Lior Kotlar, Bonnie Berger

Genome Res· July 2023

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A Randomized Parallel Algorithm for Efficiently Finding Near-Optimal Universal Hitting Sets.
Barış Ekim, Bonnie Berger, Yaron Orenstein

Res Comput Mol Biol· May 2020

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