Comments (1)
Works as expected here - let's make this a VIRION issue
julia> v = taxon("adeno-associated virus 3b"; strict=false)
Adeno-associated virus - 3 (ncbi:46350)
julia> [rank(l) => l for l in lineage(v)]
12-element Vector{Pair{Symbol, NCBITaxon}}:
Symbol("no rank") => root (ncbi:1)
:superkingdom => Viruses (ncbi:10239)
:clade => Monodnaviria (ncbi:2731342)
:kingdom => Shotokuvirae (ncbi:2732092)
:phylum => Cossaviricota (ncbi:2732415)
:class => Quintoviricetes (ncbi:2732422)
:order => Piccovirales (ncbi:2732534)
:family => Parvoviridae (ncbi:10780)
:subfamily => Parvovirinae (ncbi:40119)
:genus => Dependoparvovirus (ncbi:10803)
:species => Adeno-associated dependoparvovirus A (ncbi:1511891)
Symbol("no rank") => Adeno-associated virus - 3 (ncbi:46350)
Names only mismatch because a non-strict matching is used.
from ncbitaxonomy.jl.
Related Issues (20)
- Documentation update for the next release
- Create a namefinder from a list of IDs
- TagBot trigger issue HOT 33
- Allow arbitrary distance function
- Return the nearest names
- Standard namefinders
- Add a freshness parameter
- Use Scratch.jl
- New divisions
- Use Preferences.jl to store a single taxo db
- Taxonomic tree HOT 5
- Use a central location for the taxonomy and default to PKG if not set HOT 1
- > 50% of queries are returning NA; and, separately, exact matches aren't returning where appropriate HOT 3
- Citing NCBITaxonomy.jl HOT 4
- In-part names only return the first element HOT 2
- Function to disambiguate names HOT 1
- [out there] processing taxon identifiers via NLP HOT 1
- Issue with lowercase search conflicting with vernaculars HOT 1
- RegEx search
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from ncbitaxonomy.jl.