expression2List {scRepertoire} | R Documentation

## Allows users to take the meta data in seurat/SCE and place it into a list that will work with all the functions

### Description

Allows users to perform more fundamental measures of clonotype analysis using the meta data from the seurat or SCE object. For Seurat objects the active identity is automatically added as "cluster". Reamining grouping parameters or SCE or Seurat objects must appear in the meta data.

### Usage

    expression2List(sc, group)

### Arguments

`sc` | object after combineExpression().
`group` | The column header to group the new list by

### Value

list derived from the meta data of single-cell object with elements divided by the group parameter

### Examples

    #Getting the combined contigs
    combined <- combineTCR(contig_list, rep(c("PX", "PY", "PZ"), each=2),
    rep(c("P", "T"), 3), cells ="T-AB")

    #Getting a sample of a Seurat object
    screp_example <- get(data("screp_example"))
    sce <- suppressMessages(Seurat::UpdateSeuratObject(screp_example))
    sce <- Seurat::as.SingleCellExperiment(sce)

    #Using expression2List
    newList <- expression2List(sce, group = "seurat_clusters")

[Package scRepertoire version 1.4.0 Index]