Table 2 |
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|
Validation of polymorphism predictions in Est-1 |
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|
Graph analysis |
Single-reference analysis |
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|
|
|
|||||
|
Na |
Recallb |
FDRc |
Recallb |
FDR† |
||
|
|
||||||
|
SNPs |
2,316 |
85.2% |
0.4% |
77.5% |
0.4% |
|
|
|
||||||
|
Deletions |
All |
183 |
53.6% |
2.0% |
38.8% |
2.7% |
|
1-3 bp |
132 |
68.2% |
2.2% |
53.8% |
2.7% |
|
|
≥ 4 bp |
51 |
15.7% |
0.0 |
0 |
n/a |
|
|
|
||||||
|
Insertions |
All |
167 |
53.9% |
2.2% |
45.5% |
1.3% |
|
1-3 bp |
128 |
66.4% |
2.3% |
59.4% |
1.3% |
|
|
≥ 4 bp |
39 |
12.8% |
0.0 |
0 |
n/a |
|
|
|
||||||
|
aNumber of known variants in 600 kb of dideoxy sequence data from [38]. bRatio of confirmed to the sum of confirmed and missed predictions of the respective kind; indicates sensitivity of method. cFalse discovery rate, percentage of erroneous calls. |
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|
Schneeberger et al. Genome Biology 2009 10:R98 doi:10.1186/gb-2009-10-9-r98 |
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