Table 1.

Feature comparison of KAT and Merqury

	KAT	Merqury
K-mer analysis
Count	Y	Y
Filter	Y	Y
Compare	Y	Y
%GC	Y	–
Fitting distributions	Y	–
Other set operations, querying	–	Y
Assembly statistics
Finding repetitive regions	Y	–
Contamination detection	Y	–
K-mer copy-number spectrum	Y	Y
K-mer assembly, haplotype spectrum	–	Y
Consensus quality (QV)	–	Y
K-mer completeness	–	Y
Phase blocks and switch error rate	–	Y
Plotting
Stacked histograms	Y	Y
Unstacked histograms	–	Y
K-mer coverage	Y	Y
%GC Heatmaps	Y	–
Hap-mer fractions (blob plots)	–	Y
Browser tracks (BED, TDF)	–	Y
Nx or NGx contig/block sizes	–	Y