Work

In-depth data movement characterization of DNA read mapping algorithms

Year: 2026

Type: conference-paper

Abstract: We present an extensive workload characterization of leading read-mapping algorithms across diverse sequencing technologies to understand hardware acceleration and optimization opportunities, using Intel VTune profiler and DAMOV-SIM for specific memory-bound functions.

Source: International Conference on Supercomputing

DOI: 10.1145/3774895.3815153

Authors: Berkan Şahin, Ecem İlgün, Klea Zambaku, Can Alkan

Institution: Bilkent University

Language: English

Topic: Parallel Computing and Optimization Techniques

Subfield: Hardware and Architecture

Field: Computer Science

Domain: Physical Sciences

Open Access status: hybrid

Funder: HORIZON EUROPE European Innovation Council

Award: Processing-in-memory architectures and programming libraries for bioinformatics algorithms