01 Jan 2013
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Nonpareil measures read redundancy using different heuristics and (optionally) exact k-mer comparisons to estimate the abundance-weighted average coverage of a metagenome as well as its sequence diversity (Nd).
The original publication of Nonpareil described the base algorithm as well as the statistical basis for coverage estimation based on redundancy. The k-mer kernel and the diversity index are described in the Nonpareil 3 manuscript. Additional biological and statistical context as well as practical relevance are discussed in a commentary about coverage.
Publication: Rodriguez-R et al 2018
Publication: Rodriguez-R & Konstantinidis 2013
Discussion: Rodriguez-R & Konstantinidis 2014