From 68dd20e96aefe9fc529d0ad8fba726d001461b6a Mon Sep 17 00:00:00 2001 From: Kelly Sovacool Date: Wed, 8 Jan 2025 09:05:32 -0500 Subject: [PATCH] docs: add normalize_counts() example to intro --- vignettes/intro.Rmd | 9 ++++++++- 1 file changed, 8 insertions(+), 1 deletion(-) diff --git a/vignettes/intro.Rmd b/vignettes/intro.Rmd index c11bc52..b208182 100644 --- a/vignettes/intro.Rmd +++ b/vignettes/intro.Rmd @@ -49,7 +49,14 @@ moo <- moo %>% 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, + ) %>% + normalize_counts( + gene_names_column = "Ensembl_ID_version", + sample_names_column = "sample_id", + group_column = "condition", + label_column = "sample_id", + columns_to_include = c("Ensembl_ID_version", "KO_S3", "KO_S4", "WT_S1", "WT_S2") ) -moo@counts$filt %>% head() +moo@counts$norm$voom %>% head() ```