loadTaxonomyDb: Return a data.frame that lists the known taxonomy IDs and...
In Bioconductor/GenomeInfoDb: Utilities for manipulating chromosome names, including modifying them to follow a particular naming style
View source: R/loadTaxonomyDb.R
loadTaxonomyDb R Documentation
Return a data.frame that lists the known taxonomy IDs and their
corresponding organisms.
Description
NCBI maintains a collection of unique taxonomy IDs and pairs these
with associated genus and species designations. This function returns
the set of pre-processed values that we use to check that something is
a valid Taxonomy ID (or organism).
Usage
loadTaxonomyDb()
Value
A data frame with 1 row per genus/species designation and three columns.
The 1st column is the taxonomy ID. The second columns is the genus and the
third is the species name.
Author(s)
Marc Carlson
Examples
## get the data
taxdb <- loadTaxonomyDb()
tail(taxdb)
## which can then be searched etc.
taxdb[grepl('yoelii', taxdb$species), ]
Bioconductor/GenomeInfoDb documentation built on April 19, 2024, 9:28 a.m.
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View source: R/loadTaxonomyDb.R
| loadTaxonomyDb | R Documentation |
Return a data.frame that lists the known taxonomy IDs and their corresponding organisms.
Description
NCBI maintains a collection of unique taxonomy IDs and pairs these with associated genus and species designations. This function returns the set of pre-processed values that we use to check that something is a valid Taxonomy ID (or organism).
Usage
loadTaxonomyDb()
Value
A data frame with 1 row per genus/species designation and three columns. The 1st column is the taxonomy ID. The second columns is the genus and the third is the species name.
Author(s)
Marc Carlson
Examples
## get the data
taxdb <- loadTaxonomyDb()
tail(taxdb)
## which can then be searched etc.
taxdb[grepl('yoelii', taxdb$species), ]
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.
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