CUDA-BLASTP on Tesla GPUs

CUDA-BLASTP is designed to accelerate NCBI BLAST for scanning protein sequence databases by taking advantage of the massively parallel CUDA architecture of NVIDIA Tesla GPUs. CUDA-BLASTP also has a utility to convert FASTA format database into files readable by CUDA-BLASTP.

Download and Installation

Benchmark Data

CUDA-BLASTP running on a workstation with two Tesla C1060 GPUs is 10x faster than NCBI BLAST (2.2.22) running on an Intel i7-920 CPU. This cuts compute time from minutes on CPUs to seconds using GPUs.

BLASTP

Technical Papers

Discussion Forums