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Table 2 The compression ratios of the compared methods on ten test data sets

From: LW-FQZip 2: a parallelized reference-based compression of FASTQ files

   LW-FQZip 2 LW-FQZip 2 (−g) LW-FQZip 1 Quip (−a) Quip (−r) DSRC 2 CRAM FQZcomp LFQC LEON SCALCE bzip 2 gzip
Long-read SRR2916693 16.7% 15.3% 18.1% 20.9% 20.5% 20.2% 21.9% 21.6% 12.7% 19.5% 17.2%a 24.2% 29.6%
SRR2994368 17.3% 16.0% 17.9% 20.1% N/A 23.2% 26.4% N/A N/A 23.1% 17.3%a 28.5% 34.2%
SRR3211986 33.3% 32.3% N/A 33.3% N/A N/A 33.9% N/A 32.3% N/A 33.4%a 36.4% 42.6%
ERR739513 35.2% 34.8% N/A N/A N/A N/A 35.6% N/A 34.9% N/A N/A 39.7% 45.4%
SRR3190692 12.7% 11.7% 13.2% 16.5% N/A 20.3% 22.3% N/A N/A 18.1% 12.7%a 24.4% 29.5%
Short-read ERR385912 6.4% 5.0% 6.6% 7.2% N/A 7.8% N/A N/A 5.8% 7.0% 6.6%a 13.9% 17.9%
ERR386131 16.5% 16.0% 18.7% 17.7% 16.6% 16.8% 25.5% 24.6% 15.5% N/A 16.6%a 21.5% 26.0%
SRR034509 23.7% 22.7% 25.0% 25.1% 24.9% 26.1% 27.4% 26.1% 23.7% 27.9% 24.5%a 31.5% 36.9%
ERR174310 21.0% 20.1% N/A 20.0% N/A 20.2% N/A N/A N/A 25.3% 19.6%a 26.2% 31.7%
ERR194147 20.1% 14.3% N/A 20.0% N/A 20.3% N/A N/A N/A 20.3% 15.4%a 19.7% 23.6%
  1. Compressed Ratio: the compressed file size divided by the original file size; ‘N/A’: the program cannot work on the data, some error occur in program, such as loses fidelity after decompression or decompression failed; ‘a’: the read order is changed after decompression; The best results are highlighted in bold