correlationPlotLiP {MSstatsLiP} | R Documentation

## Plot run correlation for provided LiP and TrP experiment.

### Description

Plot run correlation for provided LiP and TrP experiment.

### Usage

    correlationPlotLiP(
      data,
      method = "pearson",
      value_columns = "INTENSITY",
      x.axis.size = 10,
      y.axis.size = 10,
      legend.size = 10,
      width = 10,
      height = 10,
      address = ""
    )

### Arguments

`data` | output of MSstatsLiP converter function. Must include at least ProteinName, Run, and Intensity columns
`method` | one of "pearson", "kendall", "spearman". Default is pearson.
`value_columns` | one of "INTENSITY" or "ABUNDANCE". INTENSITY is the raw data, whereas ABUNDANCE is the log transformed INTENSITY column. INTENSITY is default.
`x.axis.size` | size of axes labels, e.g. name of the comparisons in heatmap, and in comparison plot. Default is 10.
`y.axis.size` | size of axes labels, e.g. name of targeted proteins in heatmap. Default is 10.
`legend.size` | size of legend for color at the bottom of volcano plot. Default is 10.
`width` | width of the saved file. Default is 10.
`height` | height of the saved file. Default is 10.
`address` | the name of folder that will store the results. Default folder is the current working directory. The other assigned folder has to be existed under the current working directory. An output pdf file is automatically created with the default name of "VolcanoPlot.pdf" or "Heatmap.pdf". The command address can help to specify where to store the file as well as how to modify the beginning of the file name. If address=FALSE, plot will be not saved as pdf file but showed in window

### Value

plot or pdf

### Examples

    ## Use output of dataSummarizationLiP function
    correlationPlotLiP(MSstatsLiP_Summarized, address = FALSE)

[Package MSstatsLiP version 1.0.0 Index]