warning_DA: Warning for differential_analysis_scExp

In vallotlab/ChromSCape: Analysis of single-cell epigenomics datasets with a Shiny App

Warning for differential_analysis_scExp

Description

Warning for differential_analysis_scExp

Usage

warning_DA(scExp, by, de_type, method, block, group, ref)

Arguments

scExp	A SingleCellExperiment object containing consclust with selected number of cluster.
by	= A character specifying the column of the object containing the groups of cells to compare. Exclusive with de_type == custom
de_type	Type of comparisons. Either 'one_vs_rest', to compare each cluster against all others, or 'pairwise' to make 1 to 1 comparisons. ('one_vs_rest')
method	Wilcoxon or edgerGLM
block	Use batches as blocking factors ?
group	If de_type is custom, the group to compare (data.frame), must be a one-column data.frame with cell_clusters or sample_id as character in rows
ref	If de_type is custom, the reference to compare (data.frame), must be a one-column data.frame with cell_clusters or sample_id as character in rows

Value

Warnings or Errors if the input are not correct

vallotlab/ChromSCape documentation built on Oct. 15, 2023, 1:47 p.m.