Figure 1.
PCA plots for respectively all DArT markers (A) and all GBS markers available (B).
A few large full-sibs families are color coded. (blue: Pioneer 2737W/Geneva, orange : Pioneer 2737W/Cayuga, green: Coker 8427 /AC Ron, purple: Diana/NY80095-6, red: Cayuga/Caledonia). Full-sibs are lines with the same both parents. Some of the important lines in the breeding program are indicated by their name on the plot to allow a comparison of the two PCA plots.
Figure 2.
Heatmap of the R2 of the eigenvector between the two platform.
R2 between eigenvectors of the PCA on all DArT markers and eigenvectors of the PCA on all GBS markers after random forest imputation.
Table 1.
Population genetics parameters computed using the DArT and p-value from the GBS bootstrap.
Figure 3.
DArT MAF distribution and 95% confidence interval from the GBS bootstrap.
The filled circle corresponds to the DArT and the empty circle corresponds to the mean of the 1000 GBS bootstrap samples.
Figure 4.
DArT PCA R2 and 95% confidence interval from the GBS bootstrap.
The filled circle corresponds to the DArT and the empty circle corresponds to the mean of the 1000 GBS bootstrap samples.
Table 2.
Non-redundant GBS and DArT markers and P-value function of the R2 cutoff.
Table 3.
Cross-validated GS accuracy for DArT and GBS and boostrap p-values for the DArT markers.