plotRegion {MEAL} | R Documentation

## Plot results in a genomic region

### Description

Plot the results from the different analyses of a `ResultSet` in a specific genomic region. It can plot all the results from `runPipeline`.

### Usage

    plotRegion(
      rset,
      range,
      results = names(rset),
      genome = "hg19",
      rset2,
      tPV = 5,
      fNames = c("chromosome", "start", "end"),
      fNames2 = c("chromosome", "start", "end")
    )

### Arguments

`rset` | `ResultSet`
`range` | `GenomicRanges` with the region coordinates
`results` | Character with the analyses that will be included in the plot. By default, all analyses available are included.
`genome` | String with the genome used to retrieve transcripts annotation: hg19, hg38, mm10. (Default: "hg19")
`rset2` | Additional `ResultSet`
`tPV` | Threshold for P-Value
`fNames` | Names from rset fData
`fNames2` | Names from rset2 fData

### Details

This plot allows to have a quick summary of the methylation or gene expression analyses in a given region. If we use a `ResultSet` obtained from methylation data, transcripts annotation is obtained from archive. If we use a `ResultSet` obtained from gene expression data, transcripts annotation is taken from fData.

This plot can be used to plot the results of one dataset (methylation or gene expression) or to represent the association between methylation and gene expression data. If only one dataset is used, the p-values and the coefficients of DiffMean and DiffVar analyses are plotted. If we pass two `ResultSet`s, `rset` should contain methylation results and a `rset2` the gene expression results.

### Value

Regional plot

[Package MEAL version 1.22.0 Index]