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Section "Additional marking structure for graph traversal" presents a solution for traversing our representation of the de Bruijn graph.
Using this dataset, we constructed the probabilistic de Bruijn graph, the cFP structure, and marking structure, for various Bloom filter sizes (ranging from 5 to 19 bits per k-mer) and k = 23 (yielding 4.7 M solid k-mers).
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A new marking structure is introduced, in order for any traversal algorithm to mark which nodes have already been visited.
Combining the Bloom filter, the critical false positives structure and the marking structure, we implemented a new memory-efficient method for de novo assembly (Minia).
The marking structure is also space-efficient, as it only stores information for a subset of k-mers.
For the graph equipped with the cFP structure, the marking structure only records the actual complex nodes; it occupies consistently 0.49 bits per k-mer.
The marking structure records already traversed nodes.
The marked structure-sensitivity observed for hydrogenation properties with decreasing particle size may be attributed to structural and electronic properties due to the quantum-size effect of sufficiently small gold particles.
Because LTR is not specific for autolysosomes, other methods of marking autophagic structures were employed to corroborate the LTR data.
Our data further supports the existence of a complex chromatin-based marking system for exon-intron structures across the human genome.
In the aspectual system, distinctions are increasingly expressed by lexical means, i.e. by aspectual adverbs and possibly by sentence final particles, before a new structure for the marking of aspect develops in the EMC period.
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