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Müller et al., 2020 - Google Patents
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Müller et al., 2020 - Google Patents

AnySeq: A high performance sequence alignment library based on partial evaluation

Müller et al., 2020

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Document ID
12043787428180593730
Author
Müller A
Schmidt B
Hildebrandt A
Membarth R
Leißa R
Kruse M
Hack S
Publication year
Publication venue
2020 IEEE International Parallel and Distributed Processing Symposium (IPDPS)

External Links

Snippet

Sequence alignments are fundamental to bioinformatics which has resulted in a variety of optimized implementations. Unfortunately, the vast majority of them are hand-tuned and specific to certain architectures and execution models. This not only makes them …
Continue reading at arxiv.org (PDF) (other versions)

Classifications

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    • G06F9/30—Arrangements for executing machine-instructions, e.g. instruction decode
    • G06F9/38—Concurrent instruction execution, e.g. pipeline, look ahead
    • G06F9/3885—Concurrent instruction execution, e.g. pipeline, look ahead using a plurality of independent parallel functional units
    • G06F9/3889—Concurrent instruction execution, e.g. pipeline, look ahead using a plurality of independent parallel functional units controlled by multiple instructions, e.g. MIMD, decoupled access or execute
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    • G06F8/445—Exploiting fine grain parallelism, i.e. parallelism at instruction level
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    • G06—COMPUTING; CALCULATING; COUNTING
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    • G06F8/456—Parallelism detection
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    • G06F9/3885—Concurrent instruction execution, e.g. pipeline, look ahead using a plurality of independent parallel functional units
    • G06F9/3887—Concurrent instruction execution, e.g. pipeline, look ahead using a plurality of independent parallel functional units controlled by a single instruction, e.g. SIMD
    • G—PHYSICS
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    • G06F8/45—Exploiting coarse grain parallelism in compilation, i.e. parallelism between groups of instructions
    • G06F8/451—Code distribution
    • G06F8/452—Loops
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
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    • G06F9/00—Arrangements for programme control, e.g. control unit
    • G06F9/06—Arrangements for programme control, e.g. control unit using stored programme, i.e. using internal store of processing equipment to receive and retain programme
    • G06F9/30—Arrangements for executing machine-instructions, e.g. instruction decode
    • G06F9/30003—Arrangements for executing specific machine instructions
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    • G—PHYSICS
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