Table 3

Unique mapping rates and speed on 100,000 real color reads

SRR204026

Unique mapping (%)a

Estimated noise (%)b

Timing


BatMeth (fast)

39.6

0.47

77 s

BatMeth (default)

45.8

0.94

247 s

BatMeth (sensitive)

52.1

1.75

521 s

B-SOLANAc

37.4

2.06

130 s

SOCS-Bd

28.3

4.55

~71 h


aWe tabulated the unique mapping rates of the 100,000 reads. bThe error rates are estimated from the number of reverse-strand mappings as stated by Equation 2 in Materials and methods. cNote that 3.26% of B-SOLANA's resultant reads are double-counted as B-SOLANA reported two hits for them. One of the two hits is assumed to be correct for the estimation of the noise rate of B-SOLANA. dReverse-strand mapping is allowed by enabling G-A transitions in SOCS-B. BatMeth fast, default, and sensitive modes were run with -n0-N3, -n0-N4, -n0-N5 as parameters, respectively.

Lim et al. Genome Biology 2012 13:R82   doi:10.1186/gb-2012-13-10-r82

Open Data