In this work, we introduce MerBench, a compact set of PGAS benchmarks that capture the communication patterns of the parallel algorithms throughout HipMer, a ...
ABSTRACT. De novo genome assembly is one of the most important and chal- lenging computational problems in modern genomics; further, it.
In this work, we introduce MerBench, a compact set of PGAS benchmarks that capture the communication patterns of the parallel algorithms throughout HipMer, a ...
A compact set of PGAS benchmarks that capture the communication patterns of the parallel algorithms throughout HipMer, a parallel genome assembler pipeline.
Kathy Yelick holds a joint research appointment at Lawrence Berkeley National Laboratory and the University of California, Berkeley. She has been a professor of ...
These microbenchmarks were originally developed by Evangelos Georganas to analyze the communication patterns in a high-performance de novo genome assembly ...
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MerBench: PGAS Benchmarks for High Performance Genome Assembly, Evangelos Georganas, Marquita Ellis, Rob Egan, Steven Hofmeyr, Aydin Buluç, Brandon Cook ...
"MerBench: PGAS Benchmarks for High Performance Genome Assembly". Evangelos Georganas, Marquita Ellis, Rob Egan, Steven Hofmeyr, Aydın Buluç, Brandon Cook ...
This work focuses on the highly scalable HipMer assembler and identifies the dominant algorithms and communication patterns, also using microbenchmarks to ...
MerBench: PGAS Benchmarks for High Performance. Genome Assembly. Evangelos Georganas, Marquita Ellis, Rob Egan, Steven Hofmeyr,. Aydın Buluç, Brandon Cook ...