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Sequence alignment with GPU: Performance and design challenges

Gregory M. Striemer, Ali Akoglu

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Tags: Bioinformatics, Biology, Computational biology, Computer science, CUDA, nVidia, Package, Sequence alignment, Smith-Waterman algorithm, Tesla C870

October 27, 2010 by hgpu

CUDAnalyst (CUDA + Analyst)

Towards Feedback-to-Plan Decisions for Self-Evolving LLM Agents in CUDA Kernel Generation

CodegenBench

CodegenBench: Can LLMs Write Efficient Code Across Architectures?

KernelBenchX: A Comprehensive Benchmark for Evaluating LLM-Generated GPU Kernels

KernelBenchX: A Comprehensive Benchmark for Evaluating LLM-Generated GPU Kernels

CUDA Kernel Fusion Benchmarks

Analyzing the Impact of Kernel Fusion on GPU Tensor Operation Performance: A Systematic Performance Study

IntelliKit: Agent-first tooling for AMD hardware

Kerncap: Automated Kernel Extraction and Isolation for AMD GPUs

DITRON: Distributed Compiler based on Triton for Parallel Systems

DITRON: Distributed Multi-level Tiling Compiler for Parallel Tensor Programs

CuTile Benchmark Suite: Performance and Productivity Tradeoffs for GPU Kernel Programming on Blackwell Architecture

Evaluating CUDA Tile for AI Workloads on Hopper and Blackwell GPUs

Device Virtual Machine (DVM)

DVM: Real-Time Kernel Generation for Dynamic AI Models

MegaTrain: Full Precision Training of 100B+ Parameter Large Language Models on a Single GPU

MegaTrain: Full Precision Training of 100B+ Parameter Large Language Models on a Single GPU

Agentic Code Optimization via Compiler-LLM Cooperation

Agentic Code Optimization via Compiler-LLM Cooperation

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