Table 13

Performance comparison between a GPU-based aligner and our hybrid aligner
CUSHAW hybrid aligner
Runtime performance 15 sec 30 sec
Clock frequency* 1.15 GHz 200 MHz
Attached memory 6 GB 4 GB
Memory I/O 384-bit GDDR5 128-bit DDR2

* The clock frequency is the clock for the Tesla C2075 board and the FPGA chip, respectively. The GPU specifications are from [32].

Chen et al.

Chen et al. BMC Bioinformatics 2013 14:67   doi:10.1186/1471-2105-14-67

Open Data