Jit
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KAD: Assessing genome assemblies using K-mer copies in assemblies and K-mer abundance in Illumina reads
By Jit 1616 days ago
https://github.com/liu3zhenlab/KAD
KAD is designed for evaluating the accuracy of nucleotide base quality of genome assemblies. Briefly, abundance of k-mers are quantified for both sequencing reads and assembly sequences. Comparison of the two values results in a single value per k-mer, K-mer Abundance Difference (KAD), which indicates how well the assembly matches read data for each k-mer.
where, c is the count of a k-mer from reads, m is the mode of counts of read k-mers, and n is the copy of the k-mer in the assembly.
