Get ENTREZ id from gene SYMBOL

symbol_to_entrez(.data, .transcript = NULL, .sample = NULL)

Arguments

.data: A tt or tbl object.
.transcript: A character. The name of the gene symbol column.
.sample: The name of the sample column

Value

A tbl

Examples


# This function was designed for data.frame
# Convert from SummarizedExperiment for this example. It is NOT reccomended.

tidybulk::se_mini |> tidybulk() |> as_tibble() |> symbol_to_entrez(.transcript = .feature, .sample = .sample)
#> 'select()' returned 1:many mapping between keys and columns
#> # A tibble: 2,635 × 10
#>    .feature .sample    count Cell.type time  condition  days  dead entrez.x
#>    <chr>    <chr>      <dbl> <chr>     <chr> <lgl>     <dbl> <dbl> <chr>   
#>  1 ABCB4    SRR1740034  1035 b_cell    0 d   TRUE          1     1 5244    
#>  2 ABCB9    SRR1740034    45 b_cell    0 d   TRUE          1     1 23457   
#>  3 ACAP1    SRR1740034  7151 b_cell    0 d   TRUE          1     1 9744    
#>  4 ACHE     SRR1740034     2 b_cell    0 d   TRUE          1     1 43      
#>  5 ACP5     SRR1740034  2278 b_cell    0 d   TRUE          1     1 54      
#>  6 ADAM28   SRR1740034 11156 b_cell    0 d   TRUE          1     1 10863   
#>  7 ADAMDEC1 SRR1740034    72 b_cell    0 d   TRUE          1     1 27299   
#>  8 ADAMTS3  SRR1740034     0 b_cell    0 d   TRUE          1     1 9508    
#>  9 ADRB2    SRR1740034   298 b_cell    0 d   TRUE          1     1 154     
#> 10 AIF1     SRR1740034     8 b_cell    0 d   TRUE          1     1 199     
#> # ℹ 2,625 more rows
#> # ℹ 1 more variable: entrez.y <chr>