Package: treebase 0.1.5
treebase: Discovery, Access and Manipulation of 'TreeBASE' Phylogenies
Interface to the API for 'TreeBASE' <http://treebase.org> from 'R.' 'TreeBASE' is a repository of user-submitted phylogenetic trees (of species, population, or genes) and the data used to create them.
Authors:
treebase_0.1.5.tar.gz
treebase_0.1.5.zip(r-4.5)treebase_0.1.5.zip(r-4.4)treebase_0.1.5.zip(r-4.3)
treebase_0.1.5.tgz(r-4.4-any)treebase_0.1.5.tgz(r-4.3-any)
treebase_0.1.5.tar.gz(r-4.5-noble)treebase_0.1.5.tar.gz(r-4.4-noble)
treebase_0.1.5.tgz(r-4.4-emscripten)treebase_0.1.5.tgz(r-4.3-emscripten)
treebase.pdf |treebase.html✨
treebase/json (API)
NEWS
# Install 'treebase' in R: |
install.packages('treebase', repos = c('https://ropensci.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/ropensci/treebase/issues
Last updated 8 months agofrom:5954c072bb (on master). Checks:OK: 7. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Sep 28 2024 |
R-4.5-win | OK | Sep 28 2024 |
R-4.5-linux | OK | Sep 28 2024 |
R-4.4-win | OK | Sep 28 2024 |
R-4.4-mac | OK | Sep 28 2024 |
R-4.3-win | OK | Sep 28 2024 |
R-4.3-mac | OK | Sep 28 2024 |
Exports:cache_treebasedownload_metadatadrop_nontreesdryad_metadatahave_branchlengthmetadatasearch_treebase
Dependencies:apeaskpassbitopscurldigesthttrjsonlitelatticemimenlmeopensslR6RcppRCurlsysXML
Readme and manuals
Help Manual
Help page | Topics |
---|---|
A function to cache the phylogenies in treebase locally | cache_treebase |
Download the metadata on treebase using the OAI-MPH interface | download_metadata |
drop errors from the search | drop_nontrees |
Search the dryad metadata archive | dryad_metadata |
Simple function to identify which trees have branch lengths | have_branchlength |
metadata.rda | metadata |
A function to pull in the phyologeny/phylogenies matching a search query | search_treebase |
treebase.rda | treebase |