Partition-distance via the assignment problem
نویسندگان
چکیده
MOTIVATION Accuracy testing of various pedigree reconstruction methods requires an efficient algorithm for the calculation of distance between a known partition and its reconstruction. The currently used algorithm of Almudevar and Field takes a prohibitively long time for certain partitions and population sizes. RESULTS We present an algorithm that very efficiently reduces the partition-distance calculation to the classic assignment problem of weighted bipartite graphs that has known polynomial-time solutions. The performance of the algorithm is tested against the Almudevar and Field partition-distance algorithm to verify the significant improvement in speed. AVAILABILITY Computer code written in java is available upon request from the first author.
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عنوان ژورنال:
- Bioinformatics
دوره 21 10 شماره
صفحات -
تاریخ انتشار 2005