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Needs for Generating a High Performance Acceleration of GATK Best Practice

TAIPEI, TAIWAN, Jun. 30, 2020 – Next Generation Sequencing is the high-throughput technology constructed based on the technical paradigm of massively parallel sequencing to reach up to massive DNA Sequencing. The famous institute of the genome sequencing, Broad Institute of MIT and Harvard, provides the GATK Best Practice, an open source-based analysis workflow for researchers to earn the analytical result. The workflows become the industry standard to identify genomic variant for bioinformatics scientists.

Performance V.S. Consistency Result

Despite the fact that the GATK Best Practice is the most widely adopted genomic variant detection workflows, the algorithms implemented within GATK have some shortcomings for the complex workflows and the overtime execution period and etc. With the genome sequencing technology advancement, the cost reduction, and the multiple increasing needs for the Next-Generation Sequencing, the researchers need a high performance computing infrastructure to deal with the massive genome data processing without sacrificing the precision of analysis. Therefore, a high performance acceleration solution to match the GATK Best Practice is extremely important to deal with the genome data.

Focusing on alignment and variant calling algorithms, WASAI Lightning is implemented with a state-of-the-art technology of memory hierarchy and pipeline design to conquer the issue of frequent memory accesses. As a consequence, we are able to provide a highly accurate solution with significantly decreased execution time.

Variant calling result comparison(SNP)
Variant calling result comparison(INDEL)

WASAI Lightning: Best Choice for the GATK Best Practice

1. Based on the GATK Best Practice: Including BWA-MEM algorithm for alignment and variant calling analytical toolkit-GATK, it also supports multiple workflow languages and can be adapted to your analysis pipelines.

2. Level Up Without Pain: No need to modify the current analysis base; painless linking to the original tool.

3. High Performance for Results Consistency: The overall SNPs and INDELs precision, variants' recall and precision are consistent with the original software

Would you like to immediately experience WASAI Lightning High Performance Solution? Contact us at!

About WASAI Technology Inc.

WASAI Technology's mission is to deliver acceleration technologies of High-Performance Data Analysis (HPDA) in future data centers for targeted vertical applications with massive volumes and high velocities of scientific data. To strengthen and advance scientific discovery and technological research via big data-intensive acceleration in high-performance computing, WASAI Technology aims to improve commercialization and commoditization of scientific and technological applications.



WASAI Tecnology Inc.

4F, No. 6, Zhiyuan 3rd Rd., Beitou Dist., Taipei 112025, Taiwan

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