Package index • scPAS

Main Functions

Core functions for scPAS analysis

scPAS(): scPAS : A tool for identifying Phenotype-Associated cell Subpopulations from single-cell sequencing data by integrating bulk data

scPAS.prediction(): scPAS.prediction: A function that uses the scPAS model to make predictions on independent data

Data Preprocessing

Functions for data preparation and imputation

run_Seurat(): Preprocess the single-cell raw data using functions in the Seurat package

imputation(): The function of imputaion.

imputation_KNN(): A method for imputation of missing values in single cell RNA-sequencing data based on the average expression value of nearest neighbor cells.

imputation_ALRA(): A method for imputation of missing values in single cell RNA-sequencing data based on ALRA.

Utilities

Helper functions

sparse.cor(): A function compute the correlation of a sparse matrix.