Consensustme: ConsensusTME

In libcell/deconvBench: A tool for approaches evaluation of cell fraction estimation

ConsensusTME

Description

ConsensusTME

Usage

Consensustme(bulkdata, tumortype = "OV", SubMethod = "ssgsea")

Arguments

bulkdata	A matrix with genes in rows and samples in columns.
tumortype	It isone of “ACC”, “BLCA”, “BRCA”, “CESC”, “CHOL”, “COAD”, “DLBC”, “ESCA”, “GBM”, “HNSC”, “KICH”, “KIRC”, “KIRP”, “LGG”, “LIHC”, “LUAD”, “LUSC”, “MESO”, “OV”, “PAAD”, “PCPG”, “PRAD”, “READ”, “SARC”, “SKCM”, “STAD”, “TGCT”, “THCA”, “THYM”, “UCEC”, “UCS”, “UVM”, “Unfiltered”.
SubMethod	It is one of “ssgsea”, “gsva”, “plage”, “zscore”, “singScore”.

Value

A data frame of Mixed cellular fractions.

Examples

Bulk <- Bulk_GSE60424
res <- Consensustme(bulkdata = Bulk,
                    tumortype = "OV",
                    SubMethod = "ssgsea")

libcell/deconvBench documentation built on Sept. 24, 2022, 12:36 p.m.