Data set with previously accepted taxonomic names
microorganisms.old.RdA data set containing old (previously valid or accepted) taxonomic names according to the Catalogue of Life. This data set is used internally by as.mo.
microorganisms.old
Format
A data.frame with 24,246 observations and 5 variables:
col_idCatalogue of Life ID that was originally given
col_id_newNew Catalogue of Life ID that responds to an entry in the
microorganismsdata setfullnameOld full taxonomic name of the microorganism
refAuthor(s) and year of concerning scientific publication
prevalencePrevalence of the microorganism, see
?as.mo
Source
Catalogue of Life: Annual Checklist (public online taxonomic database), http://www.catalogueoflife.org (check included annual version with catalogue_of_life_version()).
Catalogue of Life
This package contains the complete taxonomic tree of almost all microorganisms (~70,000 species) from the authoritative and comprehensive Catalogue of Life (http://www.catalogueoflife.org). The Catalogue of Life is the most comprehensive and authoritative global index of species currently available.
Click here for more information about the included taxa. Check which version of the Catalogue of Life was included in this package with catalogue_of_life_version().
Read more on our website!
On our website https://msberends.gitlab.io/AMR you can find a tutorial about how to conduct AMR analysis, the complete documentation of all functions (which reads a lot easier than here in R) and an example analysis using WHONET data.