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Table 1 Comparison of AFLAP with a conventional linkage analysis pipeline. Maps aligned to assemblies in Additional file 1

From: AFLAP: assembly-free linkage analysis pipeline using k-mers from genome sequencing data

Method Assembly size Chromosomes Segregating markers detected. Markers used in linkage analysis. Minimum LOD score Linkage groups calculated Map length estimated Percent of markers placed in linkage groups (%) Collinearity of genetic map with genome assembly (average Kendall rank coefficient; τ) Run time (wall clock)
AFLAP 119 Mb 5 186,523 186,523 7 5 699 cM 99.8 0.986 59 h 32 min
AFLAP 119 Mb 5 186,523 10,000 7 5 696 cM 99.8 0.986 6 h 13 min
Conventional 119 Mb 5 225,797 225,797 20 5 701 cM 99.6 0.992 173  34 min
Conventional 119 Mb 5 226,087 10,000 7 5 698 cM 99.8 0.992 107 h 5 min