NCBI update + cancer gene roles

sigven · Sep 12, 2023 · 56366be · 56366be
1 parent ee2b7fe
commit 56366be
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -2,7 +2,7 @@ Package: geneOncoX
 Type: Package
 Title: Human gene annotations for the oncology domain
 Version: 0.7.8
-Date: 2023-08-08
+Date: 2023-09-12
 Authors@R: person(given = "Sigve", family = "Nakken", role = c("aut", "cre"),
              email = "sigven@ifi.uio.no",
              comment = c(ORCID = "0000-0001-8468-2050"))
@@ -25,8 +25,7 @@ Imports:
     readr,
     stringr,
     DT,
-    plyr,
-    purrr
+    plyr
 Suggests: 
     testthat (>= 3.1.0),
     knitr,

diff --git a/NEWS.md b/NEWS.md
@@ -1,4 +1,9 @@
-# Version 0.7.6
+# Version 0.7.9
+
+* NCBI gene function update
+* Helper function `get_cancer_gene_roles` updated
+
+# Version 0.7.8
 
 * Grab gene names/descriptions from Ensembl if missing from NCBI
 

diff --git a/R/gene_onco_xref.R b/R/gene_onco_xref.R
@@ -63,7 +63,7 @@ get_gox_data <- function(cache_dir = NA,
         "', argument force_download = FALSE"
       ))
       lgr::lgr$info(paste0("Object 'gene_", db, "' sucessfully loaded"))
-      if (db == "gencode") {
+      if (startsWith(db,"gencode")) {
         lgr::lgr$info(paste0(
           "Retrieved n = ", nrow(dat[["records"]][["grch37"]]),
           " records for",