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[cudaextender] Replace cudaextender's hardcoded encoding scheme with cudasequence #574

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atadkase opened this issue Oct 1, 2020 · 0 comments
Open

[cudaextender] Replace cudaextender's hardcoded encoding scheme with cudasequence #574

atadkase opened this issue Oct 1, 2020 · 0 comments
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cudaextender GPU-based seed extension algorithms

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@atadkase
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atadkase commented Oct 1, 2020

cudaextender/src/ungapped_xdrop.cu currently uses a hardcoded encoding scheme with fixed scoring matrices and a fixed alphabet. Replace that scheme with the generalized scheme that cudasequence will propose.
@atadkase atadkase added the cudaextender GPU-based seed extension algorithms label Oct 1, 2020
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