join_hgnc: Join query dataframe with results from the HUGO Gene Naming...

In datarail/genebabel: Convert Gene Symbols and Genes

Description

Find which columns are available by checking 'help(hgnc)'.

Usage

join_hgnc(df, query_col, match_cols, select_cols = NULL)

Arguments

df	A data.frame or tibble. The data used for querying the database.
query_col	A character vector of length one. Name of the column in 'df' that will be used to query the database.
match_cols	A character vector. The columns in the data to look for matches with the query. In order of preference, if matches to a column are found, matches to subsequent columns are not reported by default, unless return_all is 'TRUE'.
select_cols	A character vector of column names in the database that will be merged in the ouput.

Value

The input dataframe merged with the selected matching columns from the HUGO database.

Examples

d <- data.frame(a = 1:3, b = c("FLG", "SGK2", "CDK1"))
join_hgnc(d, "b",
  match_cols = c("symbol", "alias_symbol", "prev_symbol"),
  select_cols = c("entrez_id", "symbol", "refseq_accession"))

datarail/genebabel documentation built on Sept. 20, 2019, 3:50 p.m.