Scott Chamberlain

building on #631

re-integrate COL via colpluz

4

https://github.com/ropensci/colpluz is nearly to CRAN, hopefully soon. Working on branch `col-plus` - branched off of `taxa-work`. Use dataset `3LR` https://github.com/CatalogueOfLife/general/issues/79#issuecomment-710238530 for `get_col` (right now named `get_colp`, change to `get_col` as...

noam asked during chat, paraphrasing: what tasks would users do on a vector of >1 id that aren't done on individual ids. perhaps tasks like phylogenetic analyses, or community ecology...

last revdepcheck https://github.com/ropensci/taxize/runs/1130306239?check_suite_focus=true need to push to the repo to update the results - can clear all else out of the revdep folder

https://github.com/r-lib/cli#the-status-bar

- article: https://peerj.com/articles/4662/ code: https://dfzljdn9uc3pi.cloudfront.net/2018/4662/1/RADseq_microbiome_code.R - used: `classification` - article: https://www.pnas.org/content/115/51/13027/ code: https://github.com/AnahiEspindola/PelletierEtAlPNAS/blob/9b1f363dba3baddd31c084738d6bff18534edda8/SpatialMorpho/PrepareDatasets.R - used: `classification` - article: https://onlinelibrary.wiley.com/doi/abs/10.1111/geb.12820 code: https://figshare.com/articles/Data_and_code_to_reproduce_Dallas_and_Hastings_2018_Habitat_suitability_estimated_by_niche_models_is_largely_unrelated_to_species_abundance_/6026777 - don't see any taxize code here - article:...

`classification()` idea: try next higher level query to get hierarchy

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e.g., ```r taxize::classification("Eptesicus tatei", db = "ncbi") #> $`Eptesicus tatei` #> [1] NA ``` but if we try the genus ```r taxize::classification("Eptesicus", db = "ncbi") #> $Eptesicus #> name rank...

https://www.worldbirdnames.org/ https://www.worldbirdnames.org/ioc-lists/master-list-2/ xml: https://www.worldbirdnames.org/master_ioc-names_xml.xml

https://amphibiaweb.org/taxonomy/index.html

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