Work

GateKeeper-GPU: Fast and Accurate Pre-Alignment Filtering in Short Read Mapping

Year: 2021

Type: conference-paper

Abstract: We introduce GateKeeper-GPU, a fast and accurate pre-alignment filter that efficiently reduces the need for expensive sequence alignment. GateKeeper-GPU improves the filtering accuracy of GateKeeper, and by exploiting the massive parallelism provided by GPU threads it concurrently examines numerous sequence pairs rapidly. GateKeeper-GPU is available at https://github.com/BilkentCompGen/GateKeeper-GPU. Please refer to the preprint at arXiv:2103.14978 for more information.

Source: IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum

DOI: 10.1109/ipdpsw52791.2021.00039

Authors: Zulal Bingol, Mohammed Alser, Onur Mutlu, Ozcan Ozturk, Can Alkan

Institutions: Bilkent University, ETH Zurich

Language: English

Topic: Genomics and Phylogenetic Studies

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: green

OpenAlex ID: W3177399774

FWCI: 6.263

Cites: 6

Cited by: 13

Related to: 10