Table 5. Comparison of the proposed approach implemented in MultiPoint-UDM (MUDM) software with MST on a simulated double haploid population (of size 200 with 2000 markers per chromosome).
| ms% | 0 | 10 | |||||
|---|---|---|---|---|---|---|---|
| pe | 0.001 | 0.005 | 0.01 | 0.001 | 0.005 | 0.01 | |
| MST | LcM | 180 | 294 | 750 | 186 | 408 | 691 |
| Bins | 146 | 291 | 708 | 177 | 513 | 862 | |
| MUDM | LcM | 134 | 134 | 137 | 131 | 135 | 132 |
| Nsk | 81 | 75 | 58 | 75 | 86 | 64 | |
| nr | 1 | 3 | 1 | 6 | 20 | 14 | |
| lf % | 4.8 | 14.3 | 32.1 | 17.9 | 21.4 | 40.5 | |
pe, level of genotyping errors per marker; ms, simulated rate of missing data per marker; LcM, map length (in centimorgans) of a chromosome or LG; lf (%), loss factor, which represents the percentage of lost (noncharacterized) map unique positions in the constructed skeletal map compared to the simulated map; it is calculated as lf = 100 [Nskef − (Nsk − nr)]/Nskef, = 100 (Nskef − Nsk + nr)/Nskef, where Nskef is the number of intervals in the map built for the simulated error-free data, while Nsk and (Nsk − nr) are the number of noisy markers in the skeletal map, noncorrected and corrected for the number of repeats, respectively; nr, the number of “repeats” resulting from fission of the initial groups of cosegregating markers into subgroups due to genotyping errors and missing marker scores; such repeats will appear in the constructed map at separate (usually, but not necessarily, adjacent) positions.