Analysis of genomic rearrangements by using the Burrows-Wheeler transform of short-read data

BMC Bioinformatics

Table 3 Comparisons of performance of proposed method and other tools.

Method	Target	Depth	Purity	Sensitivity	FDR
This study	Misc	×40	20%	90%	<1%
		×20	20%	74%	<1%
PRISM[15]	D	×20	100%	80%	5%
LUMPY[17]	D	×40	20%	96%	4%
		×20	20%	77%	4%
CREST[16]	D,T	×40	50%	73-78%	3%

Targeted types of rearrangement and features of simulated WGS data (including the sequencing depth) differ from tool to tool. D: deletions, T: tandem duplications, Misc: insertions, deletions, inversions, tandem duplications, and intra-chromosomal and inter-chromosomal translocations, FDR: false-detection rate.

ISSN: 1471-2105