DEcomparisonPlot {CiteFuse} | R Documentation

## DEcomparisonPlot

### Description

A function to visualise the pairwise comparison of pvalue in different data modality.

### Usage

    DEcomparisonPlot(de_list, feature_list)

### Arguments

`de_list` | A list including two lists results from 'DE genes ()'.
`feature_list` | A list including two lists features indicating the selected subset of features will be visualised

### Value

A ggplot2 to visualise the comparison plot of DE.

### Examples

    library(S4Vectors)
    data(sce_control_subset)
    sce_control_subset <- DEgenes(sce_control_subset,
    group = sce_control_subset$SNF_W_louvain,
    return_all = TRUE,
    exprs_pct = 0.5)

    sce_control_subset <- selectDEgenes(sce_control_subset)

    sce_control_subset <- DEgenes(sce_control_subset,
                           altExp_name = "ADT",
                           group = sce_control_subset$SNF_W_louvain,
                           return_all = TRUE,
                           exprs_pct = 0.5)

    sce_control_subset <- selectDEgenes(sce_control_subset,
                                 altExp_name = "ADT")
    rna_list <- c("hg19_CD4",
    "hg19_CD8A",
    "hg19_HLA-DRB1",
    "hg19_ITGAX",
    "hg19_NCAM1",
    "hg19_CD27",
    "hg19_CD19")

    adt_list <- c("CD4", "CD8", "MHCII (HLA-DR)", "CD11c", "CD56", "CD27", "CD19")

    rna_DEgenes_all <- S4Vectors::metadata(sce_control_subset)[["DE_res_RNA"]]
    adt_DEgenes_all <- S4Vectors::metadata(sce_control_subset)[["DE_res_ADT"]]

    feature_list <- list(RNA = rna_list, ADT = adt_list)
    de_list <- list(RNA = rna_DEgenes_all, ADT = adt_DEgenes_all)

    DEcomparisonPlot(de_list = de_list,
                     feature_list = feature_list)

[Package CiteFuse version 1.2.1 Index]