Package index

Primary Analysis Functions

Main functions for cytokine activity scoring

scape()

Cytokine activity scores for a normalized matrix.

scapeForSeurat()

Cytokine activity scores for a Seurat matrix.

Gene Set Construction

Functions to construct and examine gene sets

genesetCytoSig()

CytoSig gene set construction.

genesetReactome()

Reactome gene set construction.

supportedCytokines()

Gene set to score for the CytoSig or the Reactome databases.

Package Documentation

scaper scaper-package

scaper: Single Cell Transcriptomics-Level Cytokine Activity Prediction and Estimation