An efficient and scalable analysis framework for variant extraction and refinement from population-scale DNA sequence data

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Figure 2.
Figure 2.

Computational costs of GATK UnifiedGenotyper and GotCloud pipelines. (A) Runtime estimated for whole-genome (6×) and whole-exome (60×) sequence data running with 40 parallel sessions on a four-node minicluster with 48 physical CPU cores. For GATK, runtimes for 1000 samples are extrapolated from analyses of a single 5-Mb block of Chromosome 20. For all other analyses, no extrapolation was used. (B) Peak memory usage estimates averaged over Chromosome 20 chunks.

This Article

  1. Published in Advance April 16, 2015, doi: 10.1101/gr.176552.114 Genome Res. 25: 918-925

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