Author: Marie Hoffmann; Michael T. Monaghan; Knut Reinert
Title: PriSeT: Efficient De Novo Primer Discovery Document date: 2020_4_7
ID: 3b3hv53b_56
Snippet: In the final combining step, we form pairs of two k-mers if they satisfy the second chemical constraint set C p (see Table 2 ). We add rank 1 and select 1 support on every B ∈ B to directly access single k-mer locations in O(1). When iterating over TKMerIDs, select 1 gives us its position index relative to the reference sequence. The search window of combinable reverse primers is then accessed by adding the amplicon length range. Again we apply.....
Document: In the final combining step, we form pairs of two k-mers if they satisfy the second chemical constraint set C p (see Table 2 ). We add rank 1 and select 1 support on every B ∈ B to directly access single k-mer locations in O(1). When iterating over TKMerIDs, select 1 gives us its position index relative to the reference sequence. The search window of combinable reverse primers is then accessed by adding the amplicon length range. Again we apply rank 1 on the window indices to address the associated TKMerIDs in the list (see Algorithm 4). Pairs satisfying the matchability constraints C p are output and can be ranked by coverage or barcode variation.
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