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GTC ON-DEMAND

Life & Material Science
Presentation
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GPU DNA Sequencing Base Quality Recalibration
Abstract:
Base recalibration is a crucial step in data processing for DNA and RNA sequencing. Established in 2010 by our group in conjunction with the 1000 Genomes project, recalibrating the probability of error for each base in a genome based on counting observations and re-modeling the empirical error has proven to correctly down estimate the systematic errors made by the sequencing instrument allowing bayesian variant calling algorithms to make the most accurate choice. The task of counting observations in the entire genome is daunting and slow. In this talk we will show how we adapted the algorithm for GPU processing to improve the very long runtimes of this process and how the use of GPUs puts us one step closer to enable fast diagnostics of critical patients in need of a fast answer.
 
Topics:
Life & Material Science, Big Data Analytics, Developer - Algorithms
Type:
Talk
Event:
GTC Silicon Valley
Year:
2015
Session ID:
S5579
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