calculate_foldchange: Function that calculates the foldchange between a given...

In crhisto/SCDC: Bulk RNA-seq deconvolution by scRNA-seq with multi-reference datasets

Description

Function that calculates the foldchange between a given cluster over the rest (It doesn't use an external library to apply the wilcox algorithm). At the end it uses bonferroni correction

Usage

calculate_foldchange(sc.eset, ct.varname, ct.group.temp, LFC.lim)

Arguments

sc.eset	ExpressionSet object for single cell samples
ct.varname	variable name for 'cell types'
LFC.lim	a threshold of log fold change when selecting genes as input to perform Wilcoxon's test.
bulk.eset	ExpressionSet object for bulk samples

Value

Estimated proportion, basis matrix, predicted gene expression levels for bulk samples

crhisto/SCDC documentation built on Dec. 19, 2021, 6:19 p.m.