An Interactive Workflow Generator to Support Bioinformatics Analysis through GPU Acceleration

by   Dulani Meedeniya, et al.

Next Generation Sequencing has introduced novel means of sequencing millions of DNA molecules simultaneously and has opened up new avenues in the field of bioinformatics that requires high performance computing technologies. Bioinformatics pipelines are constructed to carry out bioinformatics analyses in a fast and efficient manner. Workflow systems are developed to simplify the construction of pipelines and automate analyses. Still, with the availability of large amounts of sequence data, it has become challenging to have results within a reasonable amount of time. The research proposes a GPU accelerated generic software system to construct bioinformatics workflows. The system allows performing analyses through dedicated GPU computing resources, while incorporating novel web technologies to support specific requirements of bioinformatics software. The results indicate a speedup of ×3.11 when a workflow is run on the GPU accelerated system than on a CPU. System usability scale score of 77.5 suggests good usability for the system.



page 4


Managing Complex Workflows in Bioinformatics - An Interactive Toolkit with GPU Acceleration

Bioinformatics research continues to advance at an increasing scale with...

GPU Accelerated Maximum Likelihood Analysis for Phylogenetic Inference

With the advancement of biology and computer science, the amount of DNA ...

Efficient Bioinformatics Computations through GPU Accelerated Web Services

Web services have become a common means of addressing distributed task e...

GPU-accelerated machine learning inference as a service for computing in neutrino experiments

Machine learning algorithms are becoming increasingly prevalent and perf...

Data provenance tracking as the basis for a biomedical virtual research environment

In complex data analyses it is increasingly important to capture informa...

MetaCache-GPU: Ultra-Fast Metagenomic Classification

The cost of DNA sequencing has dropped exponentially over the past decad...

EBIC: an open source software for high-dimensional and big data biclustering analyses

Motivation: In this paper we present the latest release of EBIC, a next-...
This week in AI

Get the week's most popular data science and artificial intelligence research sent straight to your inbox every Saturday.