clean_taxon_info_children: Identify, extract and clean taxonomic children names from a...
In datelife: Scientific Data on Time of Lineage Divergence for Your Taxa
View source: R/opentree_taxonomy.R
clean_taxon_info_children R Documentation
Identify, extract and clean taxonomic children names from a taxonomy_taxon_info()
output.
Description
clean_taxon_info_children eliminates all taxa that will give
problems when trying to retrieve an induced subtree from Open Tree of Life.
Usage
clean_taxon_info_children(
taxon_info,
invalid = c("barren", "extinct", "uncultured", "major_rank_conflict", "incertae_sedis",
"unplaced", "conflict", "environmental", "not_otu", "hidden", "hybrid")
)
Arguments
taxon_info
An output of rotl::taxonomy_taxon_info().
invalid
A character vector of "flags", i.e., characteristics that are
used by Open Tree of Life Taxonomy to detect invalid taxon names.
Value
A list with valid children unique OTT names, OTT ids and taxonomic ranks.
datelife documentation built on July 10, 2023, 2:02 a.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
View source: R/opentree_taxonomy.R
| clean_taxon_info_children | R Documentation |
Identify, extract and clean taxonomic children names from a taxonomy_taxon_info()
output.
Description
clean_taxon_info_children eliminates all taxa that will give
problems when trying to retrieve an induced subtree from Open Tree of Life.
Usage
clean_taxon_info_children(
taxon_info,
invalid = c("barren", "extinct", "uncultured", "major_rank_conflict", "incertae_sedis",
"unplaced", "conflict", "environmental", "not_otu", "hidden", "hybrid")
)
Arguments
taxon_info |
An output of |
invalid |
A character vector of "flags", i.e., characteristics that are used by Open Tree of Life Taxonomy to detect invalid taxon names. |
Value
A list with valid children unique OTT names, OTT ids and taxonomic ranks.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.