GapFiller: a de novo assembly approach to fill the gap within paired reads

BMC Bioinformatics

Table 5 GapFiller performances on both simulated and real datasets

Organism	Dataset	Output coverage	Time
A. borkumensis	30×	80×	25' 45"
	50×	141×	53' 14"
	70×	199×	1 h 30' 23"
	90×	279×	2 h 01' 03"
A. macleodii	30×	83×	30' 55"
	50×	146×	1 h 12' 12"
	70×	203×	2 h 05' 36"
	90×	262×	3 h 12' 36"
B. amyloliquefaciens	30×	87×	26' 40"
	50×	154×	1 h 01' 24
	70×	216×	1 h 47' 51"
	90×	278×	2 h 44' 52"
B.cereus	30×	86×	35' 54
	50×	151×	1 h 20' 50"
	70×	213×	2 h 21' 28
	90×	274×	3 h 36' 37"
B. bronchiseptica	30×	87×	35' 27"
	50×	153×	1 h 19' 34"
	70×	215×	2 h 19' 01"
	90×	276×	3 h 35' 01"
S. aureus	Fragment	26×	08' 25"
	Short jump + fragment	517×	3 h 34' 01"
R. sphaeroides	Fragment	28×	08' 43"
	Short jump + fragment	230×	5 h 27' 21"

ISSN: 1471-2105