Changes between Version 57 and Version 58 of SOP/scRNA-seq

Timestamp:

04/23/24 14:58:21 (9 months ago)

Author:

xinlei.gao

Comment:

--

SOP/scRNA-seq

@@ -14 +14 @@
 For example, to load Seurat version 4, use this command:
 {{{
-require(Seurat, lib.loc="/nfs/apps/lib/R/4.2-focal/site-library.2023q1/")
+library(irlba, lib.loc = "/nfs/apps/lib/R/4.2-focal/site-library.2023q4") # the 'irlba' package is required by Seurat for linear algebra
+library(Seurat, lib.loc = "/nfs/apps/lib/R/4.2-focal/site-library.2023q1")
 }}}
 This command directs R to use a specific library path where Seurat version 4 is installed, ensuring compatibility with older datasets or software requirements.
 
-However, sometimes Seurat may depend on other R packages to run certain functions, in that case, only loading the older version of Seurat may not work. Instead, we could explicitly load all R packages from the last R library set to keep the packages compatible.
+Alternatively, we could explicitly load all R packages from the last R library set to keep the package versions consistent and compatible.
 {{{
 set_lib_paths <- function(lib_vec) {