Commodity computer clusters are often composed of hundreds of computing nodes. These generally off-the-shelf systems are not designed for high reliability. Node failures therefore...
We propose a new parallelization scheme for the hmmsearch function of the HMMER software, in order to target FPGA technology. hmmsearch is a very compute intensive software for bio...
Hardware acceleration is crucial in modern embedded system design to meet the explosive demands on performance and cost. Selected computation kernels for acceleration are usually ...
— The paper introduces a novel co-compiler and its “vertical” parallelization method, including a general model for co-operating host/accelerator platforms and a new parallel...
Many biologically motivated problems are expressed as dynamic programming recurrences and are difficult to parallelize due to the intrinsic data dependencies in their algorithms. ...
Narayan Ganesan, Roger D. Chamberlain, Jeremy Buhl...