Merge pull request #37 from Al-Murphy/main

Add yeast as a valid taxonomy choice
neurogenomics · Oct 27, 2023 · 51aaab2 · 51aaab2
2 parents c57a55a + b5cf10a
commit 51aaab2
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,7 +1,7 @@
 Package: orthogene
 Type: Package
 Title: Interspecies gene mapping 
-Version: 1.7.2
+Version: 1.7.3
 Authors@R:
     c( 
      person(given = "Brian",

diff --git a/NEWS.md b/NEWS.md
@@ -1,3 +1,9 @@
+# orthogene  1.7.3
+
+## New features
+
+* Added yeast (_Saccharomyces cerevisiae_) as a valid taxonomy choice.
+
 # orthogene  1.7.2
 
 ## Bug fixes

diff --git a/R/common_species_names_dict.R b/R/common_species_names_dict.R
@@ -8,6 +8,7 @@ common_species_names_dict <- function(species = NULL,
                   "taxonomy_id"=2) 
     type_select <- type_dict[[type]]
     #### dictionary ####
+    #taxonomy IDs taken from NCBI Taxonomy browser
     dict <- list(
         "human" = c("Homo sapiens",9606),
         "humans" = c("Homo sapiens",9606),
@@ -45,7 +46,8 @@ common_species_names_dict <- function(species = NULL,
         "worms" = c("Caenorhabditis elegans",6239),
         "earthworm" = c("Eisenia andrei",168636),
         "earthworms" = c("Eisenia andrei",168636),
-        "rice" = c("Oryza sativa",4530)
+        "rice" = c("Oryza sativa",4530),
+        "yeast" = c("Saccharomyces cerevisiae",4932)
     )
     #### Return entire dict if NULL ####
     if (is.null(species)) {