warning_DA {ChromSCape} | R Documentation

## Warning for differential_analysis_scExp

### Description

Warning for differential_analysis_scExp

### Usage

    warning_DA(scExp, de_type, method, qval.th, cdiff.th, block, group, ref)

### Arguments

`scExp` | A SingleCellExperiment object containing consclust with selected number of cluster.
`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
`qval.th` | Adjusted p-value threshold. (0.01)
`cdiff.th` | Fold change threshold. (1)
`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

[Package ChromSCape version 1.2.62 Index]