From adf1b5cda149caa78020f504370e3ab8f7eabe0c Mon Sep 17 00:00:00 2001 From: Mohit Navandar Date: Wed, 19 Jun 2024 17:41:09 +0200 Subject: [PATCH] repalced FindClusters with FindMarkers in 21_DE.Rmd --- rmd/21_DE.Rmd | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/rmd/21_DE.Rmd b/rmd/21_DE.Rmd index 3208d52..51aa0a1 100644 --- a/rmd/21_DE.Rmd +++ b/rmd/21_DE.Rmd @@ -129,7 +129,7 @@ You may inspect the results with either `View()` or `head()`. - if `ident.2=NULL` (default), then `FindMarkers()` will run a test between the group `ident.1` and **all other** cells - You may also use a vector (e.g. `c(1,3)`) as `ident.2` to compare against all the cells of clusters one and three, pooled together. -- to increase the speed and relevance of marker discovery, Seurat allows for pre-filtering of features or cells. For example, genes that are very infrequently detected in either group of cells, or genes that are expressed at similar average levels, are unlikely to be differentially expressed, so we can exclude those: `?FindClusters` +- to increase the speed and relevance of marker discovery, Seurat allows for pre-filtering of features or cells. For example, genes that are very infrequently detected in either group of cells, or genes that are expressed at similar average levels, are unlikely to be differentially expressed, so we can exclude those: `?FindMarkers` There are different flavors of these `Find*` functions. **It's important to get to know them!**