diff --git a/DESCRIPTION b/DESCRIPTION index 24b4b9d..646d0dd 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,8 +1,8 @@ Package: oncoPharmaDB Type: Package Title: Dataset with targeted and non-targeted anticancer drugs -Version: 0.6.2 -Date: 2021-11-25 +Version: 0.6.3 +Date: 2021-12-03 Authors@R: c(person(given = "Sigve", family = "Nakken", diff --git a/NEWS.md b/NEWS.md index 0e5e921..1bc9916 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,3 +1,7 @@ +# Version 0.6.3 (December 3rd 2021) + +* Data update: NCI Thesaurus (21.11e) + # Version 0.6.2 (November 25th 2021) * Data update: Open Targets Platform (2021.11) diff --git a/R/data.R b/R/data.R index 374a514..0c2b4c9 100644 --- a/R/data.R +++ b/R/data.R @@ -4,7 +4,7 @@ #' data has been harvested from the Open Targets Platform, the NCI Thesaurus, and ChEMBL. Note that each entry corresponds #' to a "drug synonym-target-indication association" #' -#' @format \bold{oncopharmadb} - A data frame with 418,620 rows and 49 columns: +#' @format \bold{oncopharmadb} - A data frame with 427,034 rows and 49 columns: #' \itemize{ #' \item \emph{drug_name} - Primary drug name (upper case, NCI Thesaurus) #' \item \emph{nci_concept_display_name} - Primary drug name (NCI Thesaurus) @@ -36,7 +36,7 @@ #' \item \emph{nci_version} - version of NCI used for this version of oncoPharmaDB #' \item \emph{chembl_version} - version of ChEMBL used for this version of oncoPharmaDB #' \item \emph{opentargets_version} - version of Open Target Platform used for this version of oncoPharmaDB -#' \item \emph{comb_regimen_indication} - type of drug molecule (Antibody, small molecule etc) +#' \item \emph{comb_regimen_indication} - logical for whether use of drug in a given condition is in the context of a drug combination #' \item \emph{immune_checkpoint_inhibitor} - logical indicating if drug is an immune checkpoint inhibitor #' \item \emph{topoisomerase_inhibitor} - logical indicating if drug is a topoisomerase inhibitor #' \item \emph{tubulin_inhibitor} - logical indicating if drug is a tubulin inhibitor @@ -64,7 +64,7 @@ #' Dataset of drug synonyms - linking known drug aliases to a primary identifier #' -#' @format \bold{oncopharma_synonyms} - A data frame with 9,946 rows and 52 columns: +#' @format \bold{oncopharma_synonyms} - A data frame with 151,796 rows and 3 columns: #' \itemize{ #' \item \emph{alias} - drug alias #' \item \emph{nci_concept_display_name} - Primary drug name (NCI Thesaurus) diff --git a/README.md b/README.md index bd403f0..03c310d 100644 --- a/README.md +++ b/README.md @@ -24,12 +24,12 @@ Anti-cancer drugs are currently provided with the following tentative drug categ * Topoisomerase inhibitors * Tubulin inhibitors -Currently (as of November 25th 2021), `oncoPharmaDB` is built upon the following +Currently (as of December 2nd 2021), `oncoPharmaDB` is built upon the following releases of external databases: - Open Targets Platform (2021.11) - ChEMBL (v29) - - NCI Thesaurus (21.10d) + - NCI Thesaurus (21.11e) #### Installation & Usage diff --git a/data/oncopharma_synonyms.rda b/data/oncopharma_synonyms.rda index bb9657e..5b3dd10 100644 Binary files a/data/oncopharma_synonyms.rda and b/data/oncopharma_synonyms.rda differ diff --git a/data/oncopharmadb.rda b/data/oncopharmadb.rda index 9021782..e62fb2c 100644 Binary files a/data/oncopharmadb.rda and b/data/oncopharmadb.rda differ diff --git a/docs/404.html b/docs/404.html index 2fc894e..8e5b3ea 100644 --- a/docs/404.html +++ b/docs/404.html @@ -71,7 +71,7 @@ oncoPharmaDB - 0.6.2 + 0.6.3 diff --git a/docs/CODE_OF_CONDUCT.html b/docs/CODE_OF_CONDUCT.html index 035c476..4149624 100644 --- a/docs/CODE_OF_CONDUCT.html +++ b/docs/CODE_OF_CONDUCT.html @@ -71,7 +71,7 @@ oncoPharmaDB - 0.6.2 + 0.6.3 diff --git a/docs/LICENSE-text.html b/docs/LICENSE-text.html index e7d5f26..91a8c2b 100644 --- a/docs/LICENSE-text.html +++ b/docs/LICENSE-text.html @@ -71,7 +71,7 @@ oncoPharmaDB - 0.6.2 + 0.6.3 diff --git a/docs/authors.html b/docs/authors.html index d9308fc..a0a859f 100644 --- a/docs/authors.html +++ b/docs/authors.html @@ -71,7 +71,7 @@ oncoPharmaDB - 0.6.2 + 0.6.3 diff --git a/docs/index.html b/docs/index.html index 317a496..db85691 100644 --- a/docs/index.html +++ b/docs/index.html @@ -35,7 +35,7 @@ oncoPharmaDB - 0.6.2 + 0.6.3 @@ -113,11 +113,11 @@

  • Topoisomerase inhibitors
  • Tubulin inhibitors
    • -

    Currently (as of November 25th 2021), oncoPharmaDB is built upon the following releases of external databases:

    +

    Currently (as of December 2nd 2021), oncoPharmaDB is built upon the following releases of external databases:

    diff --git a/docs/news/index.html b/docs/news/index.html index d649eb1..eb69dd8 100644 --- a/docs/news/index.html +++ b/docs/news/index.html @@ -71,7 +71,7 @@ oncoPharmaDB - 0.6.2 + 0.6.3
    @@ -126,6 +126,13 @@

    Changelog

    Source: NEWS.md +
    +

    +Version 0.6.3 (December 3rd 2021)

    + +

    Version 0.6.2 (November 25th 2021)

    diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml index 007a386..de6ae98 100644 --- a/docs/pkgdown.yml +++ b/docs/pkgdown.yml @@ -2,5 +2,5 @@ pandoc: 2.14.0.3 pkgdown: 1.6.1 pkgdown_sha: ~ articles: {} -last_built: 2021-11-25T19:09Z +last_built: 2021-12-03T08:52Z diff --git a/docs/reference/get_onco_drugs.html b/docs/reference/get_onco_drugs.html index fcb7573..5f6cf86 100644 --- a/docs/reference/get_onco_drugs.html +++ b/docs/reference/get_onco_drugs.html @@ -72,7 +72,7 @@ oncoPharmaDB - 0.6.2 + 0.6.3
    diff --git a/docs/reference/index.html b/docs/reference/index.html index 2ba24b1..9a04ea3 100644 --- a/docs/reference/index.html +++ b/docs/reference/index.html @@ -71,7 +71,7 @@ oncoPharmaDB - 0.6.2 + 0.6.3 diff --git a/docs/reference/oncopharma_synonyms.html b/docs/reference/oncopharma_synonyms.html index ddc758b..0414058 100644 --- a/docs/reference/oncopharma_synonyms.html +++ b/docs/reference/oncopharma_synonyms.html @@ -72,7 +72,7 @@ oncoPharmaDB - 0.6.2 + 0.6.3 @@ -137,7 +137,7 @@

    Dataset of drug synonyms - linking known drug aliases to a primary identifie

    Format

    -

    oncopharma_synonyms - A data frame with 9,946 rows and 52 columns: