Table 3.
The bootstrap based classification accuracies, stability index and number of reselected genes in all bootstrap samples of the SVM-classifier and the LDA-classifier based on all tested gene selection methods, on the SRBCT dataset
|
Selection method |
stability index |
Reselected genes |
Classification method |
Best result |
||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| |
|
|
|
|
|
SVM OvO |
SVM OvR |
MSVM |
LDA |
|
|
|
| s1 | s2 | acc | acc | acc | acc | acc | accL | accH | ||||
| SIMPLS |
OvO |
1 comp. |
0.71 |
0.60 |
127 |
0.867 |
0.977 |
0.976 |
0.941 |
0.977 |
0.913 |
1.000 |
| |
OvR |
1 comp. |
0.74 |
0.59 |
137 |
0.882 |
0.980 |
0.980 |
0.952 |
0.980 |
0.912 |
1.000 |
| |
MCLASS |
1 comp. |
0.58 |
0.39 |
240 |
0.807 |
0.930 |
0.932 |
0.829 |
0.932 |
0.797 |
1.000 |
| |
OvO |
5 comp. |
0.52 |
0.36 |
204 |
0.831 |
0.970 |
0.968 |
0.929 |
0.970 |
0.896 |
1.000 |
| |
OvR |
5 comp. |
0.63 |
0.43 |
173 |
0.867 |
0.981 |
0.979 |
0.964 |
0.981 |
0.926 |
1.000 |
| |
MCLASS |
5 comp. |
0.72 |
0.58 |
133 |
0.856 |
0.979 |
0.978 |
0.945 |
0.979 |
0.903 |
1.000 |
| |
OvO |
10 comp. |
0.40 |
0.25 |
239 |
0.817 |
0.961 |
0.958 |
0.910 |
0.961 |
0.873 |
1.000 |
| |
OvR |
10 comp. |
0.45 |
0.23 |
237 |
0.839 |
0.977 |
0.974 |
0.942 |
0.977 |
0.912 |
1.000 |
| |
MCLASS |
10 comp. |
0.63 |
0.41 |
133 |
0.832 |
0.975 |
0.973 |
0.931 |
0.975 |
0.912 |
1.000 |
| NIPALS |
OvO |
1 comp. |
0.71 |
0.60 |
127 |
0.867 |
0.977 |
0.976 |
0.941 |
0.977 |
0.913 |
1.000 |
| |
OvR |
1 comp. |
0.74 |
0.59 |
137 |
0.882 |
0.980 |
0.980 |
0.952 |
0.980 |
0.912 |
1.000 |
| |
MCLASS |
1 comp. |
0.58 |
0.39 |
240 |
0.807 |
0.930 |
0.932 |
0.829 |
0.932 |
0.797 |
1.000 |
| |
OvO |
5 comp. |
0.65 |
0.45 |
152 |
0.726 |
0.920 |
0.914 |
0.775 |
0.920 |
0.785 |
1.000 |
| |
OvR |
5 comp. |
0.68 |
0.47 |
129 |
0.748 |
0.935 |
0.932 |
0.787 |
0.935 |
0.819 |
1.000 |
| |
MCLASS |
5 comp. |
0.69 |
0.48 |
133 |
0.805 |
0.965 |
0.962 |
0.861 |
0.965 |
0.873 |
1.000 |
| |
OvO |
10 comp. |
0.66 |
0.43 |
137 |
0.711 |
0.910 |
0.905 |
0.745 |
0.910 |
0.756 |
1.000 |
| |
OvR |
10 comp. |
0.65 |
0.48 |
119 |
0.687 |
0.886 |
0.885 |
0.687 |
0.886 |
0.726 |
0.980 |
| |
MCLASS |
10 comp. |
0.67 |
0.46 |
117 |
0.723 |
0.912 |
0.909 |
0.746 |
0.912 |
0.776 |
1.000 |
| RFE |
OvO |
|
0.57 |
0.36 |
262 |
0.925 |
0.983 |
0.982 |
0.972 |
0.983 |
0.919 |
1.000 |
| |
OvR |
|
0.40 |
0.32 |
338 |
0.923 |
0.982 |
0.981 |
0.963 |
0.982 |
0.926 |
1.000 |
| T-TEST |
OvO |
|
0.29 |
0.22 |
438 |
0.925 |
0.971 |
0.969 |
0.964 |
0.971 |
0.899 |
1.000 |
| |
OvR |
|
0.47 |
0.37 |
498 |
0.929 |
0.972 |
0.971 |
0.973 |
0.973 |
0.899 |
1.000 |
| GS |
OvO |
|
0.51 |
0.39 |
533 |
0.921 |
0.969 |
0.968 |
0.964 |
0.969 |
0.889 |
1.000 |
| |
OvR |
|
0.64 |
0.54 |
367 |
0.927 |
0.980 |
0.977 |
0.979 |
0.980 |
0.923 |
1.000 |
| MCLASS | 0.57 | 0.48 | 407 | 0.921 | 0.959 | 0.957 | 0.959 | 0.959 | 0.873 | 1.000 | ||
aThe number of selected genes is set to 30. In last 3 columns is the best accuracy rate together with their bootstrap based standard deviations (accL,accH). The number of reselected genes is the sum of non zero bootstrap-based feature ranked genes (BBFR)