Fig. 1

Assembly pipeline for the 60444 and TME3 African cassava genomes. a Overview of the processing pipeline used for the assemblies (see Additional file 3 for details). b Pseudomolecule validation using the location of SNP markers on the physical map (x-axis) as compared to their position on the composite cassava genetic map [33] (y-axis) for Chr.9, which is a single scaffold 176_TME3. Each genetic marker is depicted as a dot on the plot (937 data points). c Graphical representation of mean local recombination frequencies between SNP markers along scaffold 176_TME3. The x-axis represents the physical positions of the means on Chr 9, and the y-axis indicates the recombination ratio (centiMorgan (cM)/Mb) in each 1-Mb sliding window