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(v2.1.1.9235) New website!

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dr. M.S. (Matthijs) Berends
2025-04-08 15:54:30 +01:00
parent a905303296
commit 36fd99e1f4
172 changed files with 2003 additions and 5522 deletions
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vignettes/datasets.Rmd
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@ -40,7 +40,7 @@ download_txt <- function(filename) {
msg <- paste0(
"It was last updated on ",
trimws(format(file.mtime(paste0("../data/", filename, ".rda")), "%e %B %Y %H:%M:%S %Z", tz = "UTC")),
". Find more info about the contents, (scientific) source, and structure of this [data set here](https://msberends.github.io/AMR/reference/", ifelse(filename == "antivirals", "antimicrobials", filename), ".html).\n"
". Find more info about the contents, (scientific) source, and structure of this [data set here](https://amr-for-r.org/reference/", ifelse(filename == "antivirals", "antimicrobials", filename), ".html).\n"
)
github_base <- "https://github.com/msberends/AMR/raw/main/data-raw/datasets/"
local_filename <- paste0("../data-raw/datasets/", filename)
@ -110,7 +110,7 @@ print_df <- function(x, rows = 6) {
All reference data (about microorganisms, antimicrobials, SIR interpretation, EUCAST rules, etc.) in this `AMR` package are reliable, up-to-date and freely available. We continually export our data sets to formats for use in R, MS Excel, Apache Feather, Apache Parquet, SPSS, and Stata. We also provide tab-separated text files that are machine-readable and suitable for input in any software program, such as laboratory information systems.
> If you are working in Python, be sure to use our [AMR for Python](https://msberends.github.io/AMR/articles/AMR_for_Python.html) package. It allows all relevant AMR data sets to be natively available in Python.
> If you are working in Python, be sure to use our [AMR for Python](https://amr-for-r.org/articles/AMR_for_Python.html) package. It allows all relevant AMR data sets to be natively available in Python.
## `microorganisms`: Full Microbial Taxonomy