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,
      RegressionTerms = NULL,
      xlab = "",
      ylab = "",
      xlim = "",
      ylim = NULL,
      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'`, `'theta'`, `'beta'`, `'sigma2'` and `'epsilon'`.
`Param2` | Name of the second slot to be used for the plot. Possible values: `'mu'`, `'delta'`, `'epsilon'`, `'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'`, `'delta'` or `'epsilon'`.
`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'`
`RegressionTerms` | Specifies which regression coefficients are requested. Required only if `Param = 'beta'`
`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

Nils Eling eling@ebi.ac.uk

### Examples

    help(BASiCS_MCMC)

[Package BASiCS version 1.99.1 Index]