Table 2.
Comparison of compression ratios of six software suites
| Data | Original (MB) | MCH1 (MB) | MCH2 (MB) | MCG (MB) | MCEG (MB) | Align. % | Qual value (MB) | bzip2 (MB) | gzip (MB) | MFComp (MB) |
|---|---|---|---|---|---|---|---|---|---|---|
| ERR321482 | 1429 | 191 | 186 | 312 | 213 | 29.6 | 411 | 362 | 408 | 229 |
| SRR359032 | 3981 | 319 | 282 | 657 | 458 | 61.8 | 2183 | 998 | 1133 | 263 |
| ERR532393 | 8230 | 948 | 898 | 1503 | 1145 | 46.8 | 3410 | 2083 | 2366 | 1126 |
| SRR1450398 | 5399 | 703 | 697 | 854 | 729 | 7.7 | 365 | 1345 | 1532 | 726 |
| SRR062462 | 6478 | 137 | 135 | 188 | 144 | 2.7 | 153 | 222 | 356 | 161 |
For short hand notation, we used“MCH” = MetaCRAM-Huffman, “MCG” = MetaCRAM-Golomb, “MCEG” = MetaCRAM-extended Golomb, “MFComp” = MFCompress. MCH1 is the default option of MetaCRAM with Huffman encoding, and MCH2 is a version of MetaCRAM in which we removed the redundancy in both quality scores and the read IDs. “Align. %” refers to the total alignment rates from the first and second iteration. Minimum compressed file size achievable by the methods are written in bold case letters. Minimum compressed file size achievable by the methods are written in bold case letters