P281424/AMR
1
0
Fork 0
mirror of https://github.com/msberends/AMR.git synced 2025-07-10 14:21:48 +02:00
Code Releases Activity

website update

Browse Source
This commit is contained in:
dr. M.S. (Matthijs) Berends
2022-12-11 11:44:29 +01:00
parent b1ead9c0fe
commit eed1c14b96
28 changed files with 19 additions and 297 deletions
Download Patch File Download Diff File Expand all files Collapse all files

2
R/mo_matching_score.R
View File

@ -52,7 +52,7 @@
#'
#' **Group 1** (most prevalent microorganisms) consists of all microorganisms where the taxonomic class is Gammaproteobacteria or where the taxonomic genus is *Enterococcus*, *Staphylococcus* or *Streptococcus*. This group consequently contains all common Gram-negative bacteria, such as *Pseudomonas* and *Legionella* and all species within the order Enterobacterales.
#'
#' **Group 2** consists of all microorganisms where the taxonomic phylum is Proteobacteria, Firmicutes, Actinobacteria or Sarcomastigophora, or where the taxonomic genus is `r vector_or(MO_PREVALENT_GENERA, quotes = "*")`.
#' **Group 2** consists of all microorganisms where the taxonomic phylum is Pseudomonadota (previously named Proteobacteria), Bacillota (previously named Firmicutes), Actinomycetota (previously named Actinobacteria) or Sarcomastigophora, or where the taxonomic genus is `r vector_or(MO_PREVALENT_GENERA, quotes = "*")`.
#'
#' **Group 3** consists of all other microorganisms.
#'