SeQuiLa: an elastic, fast and scalable SQL-oriented solution for processing and querying genomic intervals
Abstract
Efficient processing of large-scale genomic datasets has recently become possible due to the application of ‘big data’ technologies in bioinformatics pipelines. We present SeQuiLa—a distributed, ANSI SQL-compliant solution for speedy querying and processing of genomic intervals that is available as an Apache Spark package. Proposed range join strategy is significantly (∼22×) faster than the default Apache Spark implementation and outperforms other state-of-the-art tools for genomic intervals processing.
Type
Publication
Bioinformatics, Volume 35, Issue 12, June 2019, Pages 2156–2158
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