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Table 10 Slow down of BAM duplicate marking due to concurrency on compute farm nodes

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

Data set

biobambam

Picard

bamUtil

HG03520

1.86

3.90

1.88

HG00096

1.88

2.60

1.91

  1. Ratio of run-time between 32 and 1 concurrently running instances of biobambam’s bammarkduplicates2, Picard’s MarkDuplicates and bamUtil’s dedup on compute farm nodes for the data sets HG03520 and HG00096.
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