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Table 8 Slow down of BAM to FastQ conversion due to concurrency on compute farm nodes

From: biobambam: tools for read pair collation based algorithms on BAM files

Data set

biobambam

bam2fastq

bampe2fqworphans

Picard

bamUtil

HG03520

1.96

2.88

6.29

1.73

2.53

HG00096

1.96

2.61

5.19

1.74

2.56

  1. Ratio of run-time between 32 and 1 concurrently running instances of biobambam’s bamtofastq, bam2fastq, bampe2fqworphans, Picard’s SamToFastq and bamUtil’s bam2fastq on compute farm nodes for the data sets HG03520 and HG00096.
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