cell_map {ccfindR} | R Documentation

## Plot heatmap of clustering coefficient matrix

### Description

Retrieve a coefficient matrix `H` derived from factorization by rank value and generate heatmap of its elements.

### Usage

    cell_map(object, rank, main = "Cells", ...)

### Arguments

`object` | Object of class `scNMFSet`.
`rank` | Rank value for which the cell map is to be displayed. The object must contain the corresponding slot: one element of `coeff(object)[[k]]` for which `ranks(object)[[k]]==rank`.
`main` | Title of plot.
`...` | Other arguments to be passed to `heatmap`, `image`, and `plot`.

### Value

`NULL`

### Examples

    set.seed(1)
    x <- simulate_data(nfeatures=10,nsamples=c(20,20,60))
    rownames(x) <- seq_len(10)
    colnames(x) <- seq_len(100)
    s <- scNMFSet(count=x,rowData=seq_len(10),colData=seq_len(100))
    s <- vb_factorize(s,ranks=seq(2,5))
    plot(s)
    cell_map(s, rank=3)

[Package ccfindR version 1.7.0 Index]