TreeDist
Calculate and Map Distances Between Phylogenetic Trees
Description
Implements measures of tree similarity, including information-based generalized Robinson-Foulds distances (Phylogenetic Information Distance, Clustering Information Distance, Matching Split Information Distance; Smith 2020) <doi:10.1093/bioinformatics/btaa614>; Jaccard-Robinson-Foulds distances (Bocker et al. 2013) <doi:10.1007/978-3-642-40453-5_13>, including the Nye et al. (2006) metric <doi:10.1093/bioinformatics/bti720>; the Matching Split Distance (Bogdanowicz & Giaro 2012) <doi:10.1109/TCBB.2011.48>; the Hierarchical Mutual Information (Perotti et al. 2015) <doi:10.1103/PhysRevE.92.062825>; Maximum Agreement Subtree distances; the Kendall-Colijn (2016) distance <doi:10.1093/molbev/msw124>, and the Nearest Neighbour Interchange (NNI) distance, approximated per Li et al. (1996) <doi:10.1007/3-540-61332-3_168>. Includes tools for visualizing mappings of tree space (Smith 2022) <doi:10.1093/sysbio/syab100>, for identifying islands of trees (Silva and Wilkinson 2021) <doi:10.1093/sysbio/syab015>, for calculating the median of sets of trees, and for computing the information content of trees and splits.
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CRAN Check Status
Show all 13 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | OK |
| r-devel-linux-x86_64-debian-gcc | OK |
| r-devel-linux-x86_64-fedora-clang | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | OK |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check History
OK 13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE May 17, 2026
ERROR 9 OK · 3 NOTE · 0 WARNING · 2 ERROR · 0 FAILURE Apr 24, 2026
whether package can be installed
Installation failed. See ‘/data/gannet/ripley/R/packages/tests-clang/TreeDist.Rcheck/00install.out’ for details.
whether package can be installed
Installation failed. See ‘/data/gannet/ripley/R/packages/tests-devel/TreeDist.Rcheck/00install.out’ for details.
package dependencies
Package suggested but not available for checking: ‘TreeDistData’
package dependencies
Package suggested but not available for checking: ‘TreeDistData’
package dependencies
Package suggested but not available for checking: 'TreeDistData'
NOTE 11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Apr 22, 2026
package dependencies
Package suggested but not available for checking: ‘TreeDistData’
package dependencies
Package suggested but not available for checking: ‘TreeDistData’
package dependencies
Package suggested but not available for checking: 'TreeDistData'
ERROR 10 OK · 3 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Apr 18, 2026
whether package can be installed
Installation failed. See 'd:/Rcompile/CRANpkg/local/4.6/TreeDist.Rcheck/00install.out' for details.
package dependencies
Package suggested but not available for checking: ‘TreeDistData’
package dependencies
Package suggested but not available for checking: ‘TreeDistData’
package dependencies
Package suggested but not available for checking: 'TreeDistData'
NOTE 11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
package dependencies
Package suggested but not available for checking: ‘TreeDistData’
package dependencies
Package suggested but not available for checking: ‘TreeDistData’
package dependencies
Package suggested but not available for checking: 'TreeDistData'