Change mirixdb to whatbacteria in readme

PennChopMicrobiomeProgram · Jun 26, 2024 · 168ebdc · 168ebdc
1 parent 6c5c997
commit 168ebdc
Show file tree

Hide file tree

Showing 2 changed files with 4 additions and 4 deletions.
diff --git a/README.Rmd b/README.Rmd
@@ -159,7 +159,7 @@ human microbiome. It is here where we note that the *Firmicutes* are generally
 Gram-positive.
 
 ```{r}
-mirixdb::taxon_phenotypes %>%
+whatbacteria::taxon_phenotypes %>%
   filter(taxon %in% "Firmicutes")
 ```
 
@@ -169,7 +169,7 @@ where we note that *Lactobacillus* species are typically resistant to
 vancomycin.
 
 ```{r}
-mirixdb::taxon_susceptibility %>%
+whatbacteria::taxon_susceptibility %>%
   filter(taxon %in% "Lactobacillus")
 ```
 

diff --git a/README.md b/README.md
@@ -182,7 +182,7 @@ cover many taxa encountered in the human microbiome. It is here where we
 note that the *Firmicutes* are generally Gram-positive.
 
 ``` r
-mirixdb::taxon_phenotypes %>%
+whatbacteria::taxon_phenotypes %>%
   filter(taxon %in% "Firmicutes")
 #>        taxon   rank aerobic_status    gram_stain                     doi
 #> 1 Firmicutes Phylum           <NA> Gram-positive 10.1099/00207713-28-1-1
@@ -194,7 +194,7 @@ example, where we note that *Lactobacillus* species are typically
 resistant to vancomycin.
 
 ``` r
-mirixdb::taxon_susceptibility %>%
+whatbacteria::taxon_susceptibility %>%
   filter(taxon %in% "Lactobacillus")
 #>           taxon  rank antibiotic     value                  doi
 #> 1 Lactobacillus Genus vancomycin resistant 10.1128/AEM.01738-18