TreeSearch
Phylogenetic Analysis with Discrete Character Data
Description
Reconstruct phylogenetic trees from discrete data. Inapplicable character states are handled using the algorithm of Brazeau, Guillerme and Smith (2019) <doi:10.1093/sysbio/syy083> with the "Morphy" library, under equal or implied step weights. Contains a "shiny" user interface for interactive tree search and exploration of results, including character visualization, rogue taxon detection, tree space mapping, and cluster consensus trees (Smith 2022a, b) <doi:10.1093/sysbio/syab099>, <doi:10.1093/sysbio/syab100>. Profile Parsimony (Faith and Trueman, 2001) <doi:10.1080/10635150118627>, Successive Approximations (Farris, 1969) <doi:10.2307/2412182> and custom optimality criteria are implemented.
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CRAN Check Status
Show all 14 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-macos-arm64 | OK |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | NOTE |
| r-oldrel-macos-x86_64 | NOTE |
| r-oldrel-windows-x86_64 | NOTE |
| 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 details (14 non-OK)
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installed package size
installed size is 6.3Mb
sub-directories of 1Mb or more:
datasets 1.6Mb
doc 1.3Mb
libs 1.7Mb
installed package size
installed size is 6.1Mb
sub-directories of 1Mb or more:
datasets 1.6Mb
doc 1.3Mb
libs 1.5Mb
installed package size
installed size is 5.7Mb
sub-directories of 1Mb or more:
datasets 1.6Mb
doc 1.3Mb
libs 1.1Mb
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Check History
NOTE 11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 9, 2026
installed package size
installed size is 6.3Mb
sub-directories of 1Mb or more:
datasets 1.6Mb
doc 1.3Mb
libs 1.7Mb
installed package size
installed size is 6.1Mb
sub-directories of 1Mb or more:
datasets 1.6Mb
doc 1.3Mb
libs 1.5Mb
installed package size
installed size is 5.7Mb
sub-directories of 1Mb or more:
datasets 1.6Mb
doc 1.3Mb
libs 1.1Mb