Global haplotype assembly comparison.

Global haplotype assembly comparison of HaploClique with the software packages ShoRAH [33], PredictHaplo [14], and QuRe [16]. We report the estimated variant frequencies and, in parenthesis, the maximal length of the reconstructed haplotypes relative to the genome length, for each of the five variants. In the remaining columns, the average error rate (computed as the number of mistaken nucleotides, divided by the length of the haplotype computed), the total number of reconstructed haplotypes, and the precision (percentage of perfectly reconstructed haplotypes weighted by the respective estimated frequency) are reported. See Methods for more details on frequency estimation.