plot-BASiCS_Summary-method {BASiCS} | R Documentation

## 'plot' method for BASiCS_Summary objects

### Description

'plot' method for `BASiCS_Summary` objects

### Usage

    ## S4 method for signature 'BASiCS_Summary,ANY'
    plot(x, Param = "mu", Param2 = NULL,
      Genes = NULL, Cells = NULL, Batches = NULL, xlab = "", ylab = "",
      xlim = "", ylim = "", pch = 16, col = "blue", bty = "n",
      SmoothPlot = TRUE, ...)

### Arguments

`x` | A `BASiCS_Summary` object.
`Param` | Name of the slot to be used for the plot. Possible values: `'mu'`, `'delta'`, `'phi'`, `'s'`, `'nu'` and `'theta'`
`Param2` | Name of the second slot to be used for the plot. Possible values: `'mu'`, `'delta'`, `'phi'`, `'s'` and `'nu'` (combinations between gene-specific and cell-specific parameters are not admitted)
`Genes` | Specifies which genes are requested. Required only if `Param = 'mu'` or `'delta'`
`Cells` | Specifies which cells are requested. Required only if `Param = 'phi', 's'` or `'nu'`
`Batches` | Specifies which batches are requested. Required only if `Param = 'theta'`
`xlab` | As in `par`.
`ylab` | As in `par`.
`xlim` | As in `par`.
`ylim` | As in `par`.
`pch` | As in `par`.
`col` | As in `par`.
`bty` | As in `par`.
`SmoothPlot` | Logical parameter. If `TRUE`, transparency will be added to the color of the dots.
`...` | Other graphical parameters (see `par`).

### Value

A plot object

### Author(s)

Catalina A. Vallejos cnvallej@uc.cl

### References

Vallejos, Marioni and Richardson (2015). PLoS Computational Biology.

### Examples

    # See
    help(BASiCS_MCMC)

[Package BASiCS version 1.0.1 Index]