FamSeq: A Variant Calling Program for Family-Based Sequencing Data Using Graphics Processing Units

FamSeq: A Variant Calling Program for Family-Based Sequencing Data Using Graphics Processing Units

Various algorithms have been developed for variant calling using next-generation sequencing data, and various methods have been applied to reduce the associated false positive and false negative rates. Few variant calling programs, however, utilize the pedigree information when the family-based sequencing data are available. Here, we present a program, FamSeq, which reduces both false positive ...

Data Mining Using Graphics Processing Units

During the last few years, Graphics Processing Units (GPU) have evolved from simple devices for the display signal preparation into powerful coprocessors that do not only support typical computer graphics tasks such as rendering of 3D scenarios but can also be used for general numeric and symbolic computation tasks such as simulation and optimization. As major advantage, GPUs provide extremely ...

Achieving High Throughput Sequencing with Graphics Processing Units

High throughput sequencing has become a powerful technique for genome analysis after this concept was raised in recent years. Currently, there is a huge demand from patients that have genetic diseases which cannot be satisfied due to the limitation of computation power. Though several softwares are developed using currently most efficient algorithm to deal with various types of sequencing probl...

Fuzzy Logic-Based Image Processing Using Graphics Processor Units

This paper introduces a parallelization of fuzzy logicbased image processing using Graphics Processor Units (GPUs). Using an NVIDIA 8800 Ultra, a 126 time speed improvement can be made to fuzzy edge extraction making its processing real-time. The GPU can process approximately 42 frames per second at 640x480 image resolution, thus 307,200 inference processes per frame. With a computational speed...

Fast Density-Based Clustering Using Graphics Processing Units