Table 3.

Comparison of methods

	Contigsa	Singletons	Mate Splits	Contigs Splita	Contigs Merged	Timeb
PAVE	5601c	0	0	186	0	3 h 25 m
TGICL	8888	71	16583	3401	12	25 m
CAP3	8811	342	16621	3454	15	2 h 12 m

^a Does not include singletons.

^b PAVE and TGICL used 4 processors, whereas CAP3 is not parallelized so used one processor.

^c 3514 contigs are joined by n's where 53 of them are single-mate pair contigs.