mean_pair_dist: Mean Pairwise distance
In treestats: Phylogenetic Tree Statistics
View source: R/mean_pair_dist.R
mean_pair_dist R Documentation
Mean Pairwise distance
Description
Fast function using C++ to calculate the mean pairwise distance,
using the fast algorithm by Constantinos, Sandel & Cheliotis (2012).
Usage
mean_pair_dist(phy, normalization = "none")
Arguments
phy
phylo object or ltable
normalization
"none" or "tips", in which case the obtained mean
pairwise distance is normalized by the factor 2log(n),
where n is the number of tips.
Value
Mean pairwise distance
References
Webb, C., D. Ackerly, M. McPeek, and M. Donoghue. 2002.
Phylogenies and community ecology. Annual Review of Ecology and
Systematics 33:475-505.
Tsirogiannis, Constantinos, Brody Sandel, and Dimitris Cheliotis.
"Efficient computation of popular phylogenetic tree measures." Algorithms in
Bioinformatics: 12th International Workshop, WABI 2012, Ljubljana, Slovenia,
September 10-12, 2012. Proceedings 12. Springer Berlin Heidelberg, 2012.
treestats documentation built on Sept. 14, 2024, 9:08 a.m.
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View source: R/mean_pair_dist.R
| mean_pair_dist | R Documentation |
Mean Pairwise distance
Description
Fast function using C++ to calculate the mean pairwise distance, using the fast algorithm by Constantinos, Sandel & Cheliotis (2012).
Usage
mean_pair_dist(phy, normalization = "none")
Arguments
phy |
phylo object or ltable |
normalization |
"none" or "tips", in which case the obtained mean pairwise distance is normalized by the factor 2log(n), where n is the number of tips. |
Value
Mean pairwise distance
References
Webb, C., D. Ackerly, M. McPeek, and M. Donoghue. 2002. Phylogenies and community ecology. Annual Review of Ecology and Systematics 33:475-505.
Tsirogiannis, Constantinos, Brody Sandel, and Dimitris Cheliotis. "Efficient computation of popular phylogenetic tree measures." Algorithms in Bioinformatics: 12th International Workshop, WABI 2012, Ljubljana, Slovenia, September 10-12, 2012. Proceedings 12. Springer Berlin Heidelberg, 2012.
R Package Documentation
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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