RSPR version history

1.3.0

• Adds -pairwise option for computing SPR distance matrices

1.2.1

• Bugfix release
• fixed crash bug that affected some systems/configurations

1.2.0

• Significant new speed improvements that do improve the complexity to O(2^k n).
• See Supertrees based on the subtree prune-and-regraft distance and Computing the SPR Distance of Binary Rooted Trees in O(2^k n) Time for more details

1.1.1

• Bugfix release
• Fixed a coding error that rarely reported one more than the SPR distance

1.1.0

• Significant speed improvements that we believe improve the complexity to O(2^k n).
• The second tree can now be multifurcating.
• Added -simple_unrooted option that can be used with -total to quickly compute a good rooting of the second tree based on a bipartition balanced accuracy measure.

1.03

• Bugfix release
• The approximate distance is now output when the cluster reduction is enabled.
• The correct approximate distance is output.
• The -fpt option (without the -cluster_test cluster reduction option) now correctly outputs "exact drSPR=X" instead of "exact BB drSPR=x".

1.02

• Includes a cluster reduction step that greatly improves performance in many cases.
• Provides an option to find the total rooted SPR distance between the first input tree and each of the remaining input trees.
• Stand-alone version of the calculations used in "Subtree Prune-and-Regraft Supertrees."

1.01

• Optimized branching cases, improving the complexity to O(2.42^k n), where k is the rooted SPR distance and n is the number of leaves.
• Version used in "Fast FPT Algorithms for Computing Rooted Agreement Forests: Theory and Experiments."

1.00

• initial program version.
• Computes a 3-approximation of the rooted SPR distance between each pair of input trees.
• Computes the exact rooted SPR distance with complexity O(3^k n), where k is the rooted SPR distance and n is the number of leaves.
• Option to compute the smallest rooted SPR distance between the first input tree and each of the remaining input trees, to approximate the unrooted SPR distance.
• Version used in "A Unifying View on Approximation and FPT of Agreement Forests."