Adapts: Deconvolution Methods of ADAPTS

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

Deconvolution Methods of ADAPTS

Description

ADAPTS helps users to Estimate of cellular fractions by three framework for cell type deconvolution.

Usage

Adapts(bulkdata, signature, SubMethod = "nnls")

Arguments

bulkdata	A matrix with genes in rows and samples in columns.
signature	A data-frame containing signatures of different cell types.
SubMethod	one of four methods, inclusd of "DCQ","nnls", "DeconRNASeq", "proportionsInAdmixture", and "SVMDECON".

Value

Mixed cell composition estimation ratio data frame

Examples

Bulk <- Bulk_GSE60424
res <- Adapts(bulkdata = Bulk,
             signature = LM22,
             SubMethod = "nnls")

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