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cuda-align's Introduction

CUDA-align

Efficient CUDA code for pairwise local alignment of two sequences. Use makefile to compile the code. To execute type : mpirun SW_exe argument1 argument2

argument1: size of the subject sequence,

argument2: size of the query sequence

The algorithm implemented by this codebase is described in the following peer-reviewed publication. Please cite this paper, when using our code for academic purposes:

Chirag Jain, Subodh Kumar. "Fine-grained GPU parallelization of pairwise local sequence alignment" High Performance Computing (HiPC), 2014 21st International Conference on. IEEE, 2014. dx.doi.org/10.1109/HiPC.2014.7116912

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cuda-align's Issues

Very important question

I'm studing CUDA and bioinformatics,your code is very useful for me,so,do you have published a paper of CUDA-align? if you have,can you give me a paper's link?

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