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Table 2 Assessing the file split versus core assignment trade-off

From: FQStat: a parallel architecture for very high-speed assessment of sequencing quality metrics

Time (sec)

Strategy

1 core per file 25% segment size

2 cores per file 50% segment size

4 cores per file 100% segment size

Read Length

 75 bp

2253

2625

2922

 100 bp

2262

2684

2931

 150 bp

2363

2851

2986

  1. The input to FQStat was 100 FASTQ files each with 2 GB of size. These 100 files were generated using three different read lengths: 75 bp, 100 bp, 150 bp. The available resources were kept at 40 cores and 40 GB of memory. For each read length/analysis strategy combination, the total run time is shown in seconds