visLigandReceptor {CiteFuse} | R Documentation

## visLigandReceptor

### Description

A function to visualise ligand receptor analysis

### Usage

    visLigandReceptor(
      sce,
      type = c("pval_heatmap", "pval_dotplot", "group_network", "group_heatmap",
        "lr_network"),
      receptor_type = NULL
    )

### Arguments

`sce` | A singlecellexperiment object
`type` | A character indicates the type of the plot for ligand receptor restuls visualisation, option includes "pval_heatmap", "pval_dotplot", "group_network", "group_heatmap", and "lr_network"
`receptor_type` | A character indicates which receptor expression's ligand receptor results are used to generate the figures.

### Value

A plot visualise the ligand receptor results

### Examples

    data(lr_pair_subset, package = "CiteFuse")
    data(sce_control_subset, package = "CiteFuse")

    sce_control_subset <- normaliseExprs(sce = sce_control_subset,
    altExp_name = "ADT",
    transform = "zi_minMax")

    sce_control_subset <- normaliseExprs(sce = sce_control_subset,
                                  altExp_name = "none",
                                  exprs_value = "logcounts",
                                  transform = "minMax")

    sce_control_subset <- ligandReceptorTest(sce = sce_control_subset,
                                      ligandReceptor_list = lr_pair_subset,
                                      cluster = sce_control_subset$SNF_W_louvain,
                                      RNA_exprs_value = "minMax",
                                      use_alt_exp = TRUE,
                                      altExp_name = "ADT",
                                      altExp_exprs_value = "zi_minMax",
                                      num_permute = 100)
    visLigandReceptor(sce_control_subset,
    type = "pval_heatmap",
    receptor_type = "ADT")

[Package CiteFuse version 1.2.1 Index]