added met exon 14 skip coords

NEWS.md

@@ -1,3 +1,8 @@
+# Version 1.7.1
+
+* CIViC update (20240826)
+ - added location of MET exon 14 skipping splice site (grch37 principal transcript)
+
 # Version 1.7.0
 
 * CIViC update (20240807)

data-raw/biomarker_utilities.R

@@ -1191,6 +1191,11 @@ load_civic_biomarkers <- function(
  "c.3028+1G>A",
  "c.3028+2T>C",
  "c.3028+2T>G", 
+ "c.3082+1G>T",
+ "c.3082+1G>C",
+ "c.3082+1G>A",
+ "c.3082+2T>C",
+ "c.3082+2T>G", 
  sep=","),
  as.character(variant_alias)
  )) |>

data-raw/data-raw.R

@@ -74,7 +74,7 @@ drug_sets <- list()
 ## Get all anticancer drugs, NCI thesaurus + DGIdb
 drug_sets[['nci']] <- get_nci_drugs(
  nci_db_release = nci_db_release,
- overwrite = T,
+ overwrite = F,
  path_data_raw = path_data_raw,
  path_data_processed = path_data_tmp_processed)
 

pkgdown/index.md

@@ -10,14 +10,14 @@ Drug-target associations from the Open Targets Platform have furthermore been in
 
 _pharmOncoX_ provides anti-cancer drug classification through existing entries in the [Anatomical Therapeutic Chemical (ATC) Classification System](https://www.whocc.no/atc_ddd_index/), and these have been extended significantly with manual curation, also by establishing novel drug categories that are presently missing in the ATC classificiation tree (examples include _AURK inhibitors_, _MET inhibitors_, _BET inhibitors_, _AKT inhibitors_, _PLK inhibitors_, _IAP inhibitors_, _RAS inhibitors_, _BCL2 inhibitors_ etc.) enabling a filtering of drugs according to their main mechanisms of action.
 
-Currently (as of early August 2024), `pharmOncoX` is built upon the following 
+Currently (as of late August 2024), `pharmOncoX` is built upon the following 
 releases of external databases:
 
  - Open Targets Platform (2024.06)
  - ChEMBL (v34)
  - NCI Thesaurus (24.07e)
  - MitelmanDB (20240715)
- - CIViC (20240807)
+ - CIViC (20240826)
 
 ### Getting started