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Therefore, adjusting this parameter in a single adjacency only has an influence on that particular adjacency.
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A substitution only affects the label of one single adjacency, by substituting contiguous markers in this label, with the restriction that it cannot produce duplicated markers [ 8].
In the model we consider, an indel only affects the label of one single adjacency, by deleting or inserting contiguous markers in this label, with the restriction that an insertion cannot produce duplicated markers [ 7].
A cut performed on a genome A separates two adjacent markers of A. A cut affects a single adjacency v in A: it is done between two symbols of v, creating two open ends.
In particular, when we apply optimal DCJs internal to a single component of the adjacency graph, we can accumulate an entire run into a single adjacency [ 7].
From the list of all possible adjacencies, BC* samples with replacement to form a collection of adjacencies; only adjacencies in this collection are then considered in counting the number of shared adjacencies and then estimating the true evolutionary distances between genomes.
Same as single, differing only in size.
The adjacency matrix only gives information about whether a connection between two nodes exists in the network; in particular, it contains only topological information about the network and is not related to the colloquial meaning of adjacent as spatially nearby.
Due to the symmetric property of the adjacency matrix, only the elements in the upper triangular of the adjacency matrix are counted.
In the new order, an adjacency matrix only has subdiagonal nonzero entries, which represent forward edges.
0 Remove all circular singletons from π and Γ. 1 Close every - path (-path) into a cycle by adding a single new adjacency to π∗. 2 Form a maximum set of 2-bracelets.
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