diff --git a/omics/week-5/workshop.qmd b/omics/week-5/workshop.qmd index 824e123..d80343c 100644 --- a/omics/week-5/workshop.qmd +++ b/omics/week-5/workshop.qmd @@ -495,20 +495,27 @@ ensembl <- useMart(biomart = "ensembl", ``` -# See what info we can retrieve: +See what info we can retrieve: +```{r} listAttributes(mart = ensembl) |> View() +``` + We need ensembl_gene_id: because we will need to merge the info external_gene_name: name for gene description: description +```{r} gene_info <- getBM(filters = "ensembl_gene_id", attributes = c("ensembl_gene_id", "external_gene_name", "description"), values = prog_hspc_results$ensembl_gene_id, mart = ensembl) +``` + + Notice the dataframe returned only has 279 rows, not 280. Which one is missing?