diff --git a/paper/Benchmarking with real and synthetic datasets/Slingshot/my_slingshot.Rmd b/paper/Benchmarking with real and synthetic datasets/Slingshot/plot_slingshot.Rmd similarity index 100% rename from paper/Benchmarking with real and synthetic datasets/Slingshot/my_slingshot.Rmd rename to paper/Benchmarking with real and synthetic datasets/Slingshot/plot_slingshot.Rmd diff --git a/paper/Benchmarking with real and synthetic datasets/Slingshot/Seurat_batch_correction.Rmd b/paper/Benchmarking with real and synthetic datasets/Slingshot/train_slingshot.Rmd similarity index 95% rename from paper/Benchmarking with real and synthetic datasets/Slingshot/Seurat_batch_correction.Rmd rename to paper/Benchmarking with real and synthetic datasets/Slingshot/train_slingshot.Rmd index d319334..a68e23b 100644 --- a/paper/Benchmarking with real and synthetic datasets/Slingshot/Seurat_batch_correction.Rmd +++ b/paper/Benchmarking with real and synthetic datasets/Slingshot/train_slingshot.Rmd @@ -12,7 +12,8 @@ library(anndata) ``` ```{r} -dd <- read_h5ad("/project/jingshuw/trajectory_analysis/data/cortex_mouse_brain_merge/cortex_mouse_merged_raw_count_transpose.h5ad",backed = NULL) +# "/project/jingshuw/trajectory_analysis/data/cortex_mouse_brain_merge/cortex_mouse_merged_raw_count_transpose.h5ad" +dd <- read_h5ad("cortex_mouse_merged_raw_count_transpose.h5ad",backed = NULL) ``` ```{r} library(Seurat)