run_pipeline: Run the main pipeline for ScRNAIMM

In ScRNAIMM: Performing Single-Cell RNA-Seq Imputation by Using Mean/Median Imputation

Run the main pipeline for ScRNAIMM

Description

Run the main pipeline for ScRNAIMM

Usage

run_pipeline(ScRNA,label=NULL,k=NULL,cells=TRUE,genes=TRUE,outdir=NULL,dataset=NULL)

Arguments

ScRNA	ScRNA-seq data set generated by prepare_dataset function
label	Prior knowledge about cluster labels if NULL, will use our clustering function
k	Prior knowledge about number of clusters if NULL, will use our clustering function
cells	Boolean whether to do the imputation based on cell clustering or not
genes	Boolean whether to do the imputation based on genes or not
outdir	Path to output directory to write the imputed data
dataset	Name of the data set to be the name of the output directory

Value

a data frame with the imputed values

Author(s)

Mohamed Soudy [e-mail]

ScRNAIMM documentation built on Nov. 18, 2023, 1:09 a.m.