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RWilton authored Sep 15, 2023
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Expand Up @@ -17,8 +17,10 @@ The Arioc aligners use binary encoded lookup tables as reference genome indexes.
#### Related publications
Wilton R, Budavari T, Langmead B, Wheelan SJ, Salzberg SL, Szalay AS. **Arioc: high-throughput read alignment with GPU-accelerated exploration of the seed-and-extend search space.** *PeerJ*. 2015, **3**:e808. [DOI:10.7717/peerj.808](https://doi.org/10.7717/peerj.808)

Wilton R, Li X, Feinberg AP, Szalay AS. **Arioc: GPU-accelerated alignment of short bisulfite-treated reads.** *Bioinformatics*. 2018, **34**:2673–2675. [DOI:10.1093/bioinformatics/bty167](https://doi.org/10.1093/bioinformatics/bty167)
Wilton R, Li X, Feinberg AP, Szalay AS. **Arioc: GPU-accelerated alignment of short bisulfite-treated reads.** *Bioinformatics*. 2018, **34**(15):2673–2675. [DOI:10.1093/bioinformatics/bty167](https://doi.org/10.1093/bioinformatics/bty167)

Wilton R, Szalay AS. **Arioc: High-concurrency short-read alignment on multiple GPUs.** *PLoS Comput Biol*. 2020, **16**(11):e1008383. [DOI:10.1093/10.1371/journal.pcbi.1008383](https://doi.org/10.1371/journal.pcbi.1008383)

Wilton R, Szalay AS. **Performance optimization in DNA short-read alignment.** *Bioinformatics*. 2022, **38**:2081–2087. [DOI:10.1093/bioinformatics/btac066](https://doi.org/10.1093/bioinformatics/btac066)
Wilton R, Szalay AS. **Performance optimization in DNA short-read alignment.** *Bioinformatics*. 2022, **38**(8):2081–2087. [DOI:10.1093/bioinformatics/btac066](https://doi.org/10.1093/bioinformatics/btac066)

Wilton R, Szalay AS. **Short-read aligner performance in germline variant identification.** *Bioinformatics*. 2023, **39**(8):1–11. [DOI:10.1093/bioinformatics/btad480](https://academic.oup.com/bioinformatics/article/39/8/btad480/7234613)

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