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  • KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies

KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies

https://github.com/TGAC/KAT

We present the K-mer Analysis Toolkit (KAT): a multi-purpose software toolkit for reference-free quality control (QC) of WGS reads and de novo genome assemblies, primarily via their k-mer frequencies and GC composition. KAT enables users to assess levels of errors, bias and contamination at various stages of the assembly process. In this paper we highlight KAT’s ability to provide valuable insights into assembly composition and quality of genome assemblies through pairwise comparison of k-mers present in both input reads and the assemblies.