Table 3.
The average success rate of the four CNV-calling methods, according to CNV length and frequency (a)
| CNV length | Total amount of CNV | Amount of CNVs called by birdsuite | Amount of CNVs called by GTC | Amount of CNVs called by dChip | Amount of CNVs called by PennCNV-Affy |
|---|---|---|---|---|---|
| 30-100K |
1075 |
176(16.4%) |
45(4.2%) |
117(10.9%) |
157(14.6%) |
| 100-150K |
209 |
75(35.9%) |
38(18.2%) |
41(19.6%) |
60(28.7%) |
| 150-1000K |
334 |
208(62.3%) |
81(24.3%) |
101(30.2%) |
110(32.9%) |
|
CNV frequency |
|
|
|
|
|
| ≤20% |
417 |
85(20.4%) |
38(9.1%) |
72(17.3%) |
70(16.8%) |
| 20%<a<=40% |
216 |
69(31.9%) |
39(8817.8%) |
59(27.3%) |
72(33.3%) |
| 40%<a<=60% |
188 |
89(47.3%) |
50(26.6%) |
60(31.9%) |
66(35.1%) |
| 60%<a<=80% |
107 |
46(43%) |
8(7.5%) |
37(34.6%) |
34(31.8%) |
| a>80% | 699 | 170(24.3%) | 29(4.1%) | 32(4.6%) | 85(12.2%) |