Fig. 3: VNTR length prediction.
From: Profiling variable-number tandem repeat variation across populations using repeat-pangenome graphs
a Accuracies of VNTR length-prediction measured for each genome (left; n = 16) and each locus (right; n = 32,138). Mean absolute percentage error (MAPE) in VNTR length is averaged across loci and genomes, respectively. Lengths were predicted based on repeat-pangenome graphs (RPGG), repeat-GRCh38 (RHG) or naive read depth method (RD), respectively. Boxes span from the lower quartile to the upper quartile, with horizontal lines indicating the median. Whiskers extend to points that are within 1.5 interquartile range (IQR) from the upper or the lower quartiles. b Relative performance of RPGG versus repeat-GRCh38. Loci are ordered along the x-axis by genotyping accuracy in repeat-GRCh38. The y-axis shows the decrease in MAPE using RPGG versus repeat-GRCh38. The subplot shows loci poorly genotyped (MAPE > 0.4) in repeat-GRCh38. The red dotted line indicates the baseline without any improvement. the counts from reads mapped to the RPGG (red) and repeat-GRCh38 (blue), respectively. Source data are provided as a Source Data file.
