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ntEdit+Sealer genome finishing pipeline. ntHits extracts k‐mers from short reads and creates a Bloom filter. ntEdit queries assembly k‐mers in the short‐read Bloom filter, making base corrections where possible and flagging problematic stretches of sequences. ABySS‐Bloom extracts k‐mers and creates another Bloom filter, which is used by Sealer as an implicit de Bruijn graph to fill assembly gaps and problematic regions flagged by ntEdit.
