Table 4:
fRMA— default | GCRMA— default | MBEI— no MM | MBEI— default | MAS5.0— default | PLIER— no MM | PLIER— default | RMA— default | RMA— no BG | |
---|---|---|---|---|---|---|---|---|---|
t2-statistic | |||||||||
fRMA—default | 1.00 | 0.60 | 0.63 | 0.62 | 0.61 | 0.78 | 0.61 | 0.77 | 0.77 |
GCRMA—default | 0.60 | 1.00 | 0.54 | 0.59 | 0.59 | 0.61 | 0.57 | 0.63 | 0.62 |
MBEI—no MM | 0.63 | 0.54 | 1.00 | 0.67 | 0.50 | 0.68 | 0.57 | 0.66 | 0.66 |
MBEI—default | 0.62 | 0.59 | 0.67 | 1.00 | 0.59 | 0.64 | 0.64 | 0.64 | 0.64 |
MAS5.0—default | 0.61 | 0.59 | 0.50 | 0.59 | 1.00 | 0.59 | 0.53 | 0.60 | 0.60 |
PLIER—no MM | 0.78 | 0.61 | 0.68 | 0.64 | 0.59 | 1.00 | 0.63 | 0.87 | 0.88 |
PLIER—default | 0.61 | 0.57 | 0.57 | 0.64 | 0.53 | 0.63 | 1.00 | 0.62 | 0.62 |
RMA—default | 0.77 | 0.63 | 0.66 | 0.64 | 0.60 | 0.87 | 0.62 | 1.00 | 0.93 |
RMA—no BG | 0.77 | 0.62 | 0.66 | 0.64 | 0.60 | 0.88 | 0.62 | 0.93 | 1.00 |
Bayesian network | |||||||||
fRMA—default | 1.00 | 0.49 | 0.47 | 0.47 | 0.42 | 0.64 | 0.33 | 0.61 | 0.60 |
GCRMA—default | 0.49 | 1.00 | 0.41 | 0.46 | 0.42 | 0.50 | 0.35 | 0.52 | 0.51 |
MBEI—no MM | 0.47 | 0.41 | 1.00 | 0.52 | 0.36 | 0.52 | 0.31 | 0.49 | 0.49 |
MBEI—default | 0.47 | 0.46 | 0.52 | 1.00 | 0.41 | 0.47 | 0.37 | 0.47 | 0.47 |
MAS5.0—default | 0.42 | 0.42 | 0.36 | 0.41 | 1.00 | 0.42 | 0.32 | 0.42 | 0.42 |
PLIER—no MM | 0.64 | 0.50 | 0.52 | 0.47 | 0.42 | 1.00 | 0.34 | 0.74 | 0.77 |
PLIER—default | 0.33 | 0.35 | 0.31 | 0.37 | 0.32 | 0.34 | 1.00 | 0.34 | 0.33 |
RMA—default | 0.61 | 0.52 | 0.49 | 0.47 | 0.42 | 0.74 | 0.34 | 1.00 | 0.86 |
RMA—no BG | 0.60 | 0.51 | 0.49 | 0.47 | 0.42 | 0.77 | 0.33 | 0.86 | 1.00 |
Spearman rank correlation coefficients are computed using P-values from either a t2-statistic or a test of the equivalence of Bayesian networks. The upper table is based on Pairwise Spearman rank correlation coefficients of P-values (GSA methods based on t-statistic and Bayesian network equivalent test) were calculated for each data set, and preprocessing pair. The maximum standard error among entries is 0.037.
Note: MM, mismatch; BG, background correction.