An O ( n log n )-Time Algorithm for the Restriction Scaffold Assignment Problem
Justin Colannino, Mirela Damian, Ferrán Hurtado, John Iacono, Henk Meijer, Suneeta Ramaswami, Godfried Toussaint · Journal of Computational Biology · 2006
The restriction scaffold assignment problem takes as input two finite point sets S and T (with S containing more points than T ) and establishes a correspondence between points in S and points in T , such that each point in S maps to exactly one point in T and each point in T maps to at least one point in S. An algorithm is presented that finds a minimum-cost solution for this problem in O(n log n) time, provided that the points in S and T are restricted to lie on a line and the cost function delta is the L(1) metric. This algorithm runs in linear time, if S and T are presorted. This improves the previously best-known O(n (2))-time algorithm for this problem.