Table 3 The average success rate of the four CNV-calling methods, according to CNV length and frequency (a)
From: Evaluation of copy number variation detection for a SNP array platform
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%) |