GNATY: Optimized NGS Variant Calling and Coverage Analysis
作者： Beat Wolf , Pierre Kuonen , Thomas Dandekar
DOI: 10.1007/978-3-319-31744-1_40
关键词:
摘要: Next generation sequencing produces an ever increasing amount of data, requiring increasingly fast computing infrastructures to keep up. We present GNATY, a collection tools for NGS data analysis, aimed at optimizing parts the sequence analysis process reduce hardware requirements. The are developed with efficiency in mind, using multithreading and other techniques speed up analysis. architecture has been verified by implementing variant caller based on Varscan 2 calling model, achieving speedup nearly 18 times. Additionally, flexibility algorithm is also demonstrated applying it coverage Compared BEDtools same results were found but only half time GNATY. increase allows faster more analyse sample multiple settings. software freely available non-commercial usage http://gnaty.phenosystems.com/.
springer.com
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