Table 5 Overlap ratio of original data and HapMap data with Park and Conrad's data
From: Comparative analysis of copy number variation detection methods and database construction
| Programs | Average of overlap ratio of HapMap with Conrad's data[28]and Park's data[29] | Average of overlap ratio of original data with Conrad's data[28]and Park's data[29] | Average of overlap ratio of original data of commonly detected regions at least two programs, with Conrad's data[28]and Park's data[29] | Average of overlap ratio of original data of commonly detected regions in more than two individuals, with Conrad's data[28]and Park's data[29] | Average of overlap ratio of original data of commonly detected regions in more than nine individuals with Conrad's data[28]and Park's data[29] |
|---|---|---|---|---|---|
| PennCNV [8986/5619] |
52.2/53.2%*$ 44.6/50.8%$$ |
35.8/39.7% 32.1/39.0% |
42.5/45.2% 42.7/48.2% |
57.8/58.6% 58.6/63.9% |
61.8/62.3% 62.9/68.0% |
|
Birdseye (part of Birdsuite) [6959/5063] |
68.7/69.6% 62.9/65.6% |
71.0/71.6% 81./83.2% |
62.1/63.1% 71.4/74.6% |
75.6/75.8% 86.7/88.5% |
79.4/79.5% 91.6/92.9% |
|
Birdsuite [31852/25794] |
66.3/66.6% 53.4/56.5% |
65.0/65.3% 63.8/66.8% |
65.2/65.9% 73.9/77.1% |
67.9/67.9% 67.1/70.1% |
70.6/70.6% 69.7/72/7% |
| DNAcopy [10243/4436] |
63.2/64.2% 49.6/54.1% |
24.2/27.8% 20.0/25.6% |
33.8/36.6% 33.4/38.6% |
66.4/66.8% 61.9/66.4% |
72.5/72.5% 67.6/71.1% |
|
CGHseg [4043/1966] |
54.7/56.6% 38.9/45.4% |
31.1/38.8% 21.9/31.7% |
38.1/41.6% 33.7/40.4% |
68.0/69.6% 56.3/63.3% |
74.5/75.5% 60.8/65.5% |
