Table 2

Comparison of Readjoiner and SGA
RJ SGA <a onClick="popup('http://www.biomedcentral.com/1471-2105/13/82/mathml/M118','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/82/mathml/M118">View MathML</a> RJ SGA <a onClick="popup('http://www.biomedcentral.com/1471-2105/13/82/mathml/M119','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/82/mathml/M119">View MathML</a> RJ SGA <a onClick="popup('http://www.biomedcentral.com/1471-2105/13/82/mathml/M120','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/82/mathml/M120">View MathML</a> RJ SGA <a onClick="popup('http://www.biomedcentral.com/1471-2105/13/82/mathml/M121','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2105/13/82/mathml/M121">View MathML</a>
Read set c22 c22 - c15 c15 - c7 c7 - c2 c2 -
Genome size (Mbp) 34.9 34.9 - 81.7 81.7 - 155.4 155.4 - 238.2 238.2 -
Number of reads (M) 7.0 7.0 - 16.3 16.3 - 31.1 31.1 - 47.6 47.6 -
Sga index -d (K) - 300 - - 700 - - 1350 - - 2300 -
Overall time (s) 360 7508 20.86× 945 19334 20.46× 2035 39988 19.65× 3185 65194 20.47×
Overall space (MB) 294 383 1.30× 703 842 1.20× 1331 1568 1.18× 2094 2436 1.16×
Contigs 120712 231594 - 254830 547217 - 503446 1215816 - 634403 1702714 -
Total contigs length (Mbp) 45.7 55.9 - 103.0 130.5 - 198.8 266.4 - 292.2 396.1 -
Assembly N50 (Kbp) 1.6 0.8 - 2.4 1.0 - 2.3 0.5 - 3.2 1.2 -
Assembly NG50 (Kbp) 2.7 2.7 - 3.7 3.7 - 3.9 3.9 - 4.5 4.5 -
Longest contig (Kbp) 41.4 41.4 - 54.2 54.2 - 44.9 44.9 - 52.9 52.9 -

Results of applying Readjoiner (RJ) and SGA to the datasets c22, c15, c7, c2 (ℓmin = 45).

Gonnella and Kurtz

Gonnella and Kurtz BMC Bioinformatics 2012 13:82   doi:10.1186/1471-2105-13-82

Open Data