docs: demo filter_counts() in intro vignette

CCBR · Oct 8, 2024 · 646fb01 · 646fb01
1 parent eca42f5
commit 646fb01
Showing 1 changed file with 10 additions and 1 deletion.
diff --git a/vignettes/intro.Rmd b/vignettes/intro.Rmd
@@ -35,5 +35,14 @@ renee_ds <- create_reneeDataSet_from_files(
   gene_counts_filepath = gene_counts_tsv
 )
 
-renee_ds@counts$raw %>% head()
+renee_ds <- renee_ds %>% filter_counts(
+  group_column = "condition",
+  label_column = "sample_id",
+  columns_to_include = c("gene_id", "KO_S3", "KO_S4", "WT_S1", "WT_S2"),
+  minimum_count_value_to_be_considered_nonzero = 1,
+  minimum_number_of_samples_with_nonzero_counts_in_total = 1,
+  minimum_number_of_samples_with_nonzero_counts_in_a_group = 1,
+)
+
+renee_ds@counts$filt %>% head()
 ```