-
Install R (in case you don't have it already installed):
Download and install R.
You may want to install RStudio as well.
-
Install devtools package in R (in case you don't have it already installed):
install.packages("devtools")
library(devtools)
-
Install scDissector:
install_github("effiken/scDissector")
- Load devtools
library(devtools)
- Install the package as in (3) above
library(scDissector)
run_scDissector()
or
run_scDissector(clustering_data_path =**["PATH"]**)
Loading the data prior to running scDissector is recommended:
ldm = load_scDissector_data(clustering_data_path=**["PATH"]**, model_name=[STRING], sample_names=[VECTOR_OF_STRINGS])
run_scDissector(preloaded_data = ldm, clustering_data_path = **["PATH"]**)
ldm=load_seurat_rds("[seurat_rds_file_path]",model_name,clustering_data_path=**["PATH"]**)
run_scDissector(preloaded_data = ldm, clustering_data_path = **["PATH"]**)
ldm=load_metacell_clustering(mc_file,mat_file,model_name,clustering_data_pat
h=["PATH"])`
run_scDissector(preloaded_data = ldm, clustering_data_path = **["PATH"]**)
https://scDissector.org/martin (Martin et al. Cell 2019)