GPU-accelerated CellProfiler

CellProfiler excels at bridging the gap between advanced image analysis algorithms and scientists who lack computational expertise. It lacks however high performance capabilities needed for High Throughput Imaging experiments where workloads reach hundreds of TB of data and are computationally very demanding. In this work, we introduce a GPU-accelerated CellProfiler where the most time-consuming algorithmic steps are executed on Graphics Processing Units. Experiments on a benchmark dataset showed significant speedup over both single and multi-core CPU versions. The overall execution time was reduced from 9.83 Days to 31.64 Hours.

ISBN:9781538654880

Publication year:2018

Keywords:CellProfiler, High Throughput Imaging, Graphics Processing Units, High Performance Computing

BOF-keylabel:yes

IOF-keylabel:yes

Accessibility:Closed