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Table 2 Timings on removing biological contaminations with FastqPuri and BioBloom

From: FastqPuri: high-performance preprocessing of RNA-seq data

 

Bloom maker

Contaminations

User time

FastqPuri

32m45s

4m10s

BioBloom

41m28s

2m58s

CPU time

FastqPuri

0m9.2s

0m4.4s

BioBloom

0m7.1s

0m5.4s

Peak mem

FastqPuri

5.78GB

3.24GB

BioBloom

3.24GB

3.24GB

  1. ‘Bloom maker’ refers to generating the bloom filter, ‘Contaminations’ refers to classifying the reads using the bloom filter. Peak mem stands for peak memory usage