![]() Specifically, any combination of operations is possible in a single pass, with the exception of kmer-based operations (kmer trimming, kmer masking, or kmer filtering) at most 1 kmer-based operation can be done in a single pass. It is capable of quality-trimming and filtering, adapter-trimming, contaminant-filtering via kmer matching, sequence masking, GC-filtering, length filtering, entropy-filtering, format conversion, histogram generation, subsampling, quality-score recalibration, kmer cardinality estimation, and various other operations in a single pass. BBDuk was developed to combine most common data-quality-related trimming, filtering, and masking operations into a single high-performance tool. “Duk” stands for Decontamination Using Kmers.
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