plot_corr_matrix {proBatch} | R Documentation

## Visualise correlation matrix

### Description

Plot correlation of selected samples or peptides

### Usage

    plot_corr_matrix(corr_matrix, flavor = c("pheatmap", "corrplot"),
      filename = NULL, width = NA, height = NA, unit = c("cm", "in",
      "mm"), plot_title = NULL, ...)

### Arguments

`corr_matrix` | square correlation matrix
`flavor` | either corrplot from 'corrplot' package or heatmap, as in 'pheatmap'
`filename` | path where the results are saved. If null the object is returned to the active window; otherwise, the object is save into the file. Currently only pdf and png format is supported
`width` | option determining the output image width
`height` | option determining the output image width
`unit` | units: 'cm', 'in' or 'mm'
`plot_title` | Title of the plot (usually, processing step + representation level (fragments, transitions, proteins))
`...` | parameters for the `corrplot.mixed` or `pheatmap` visualisation, for details see examples and help to corresponding functions

### Value

`corrplot` or `pheatmap` object depending on `flavor`

### See Also

`pheatmap`, `corrplot.mixed`

### Examples

    peptides <- c("10231_QDVDVWLWQQEGSSK_2", "10768_RLESELDGLR_2")

    data_matrix_sub = example_proteome_matrix[peptides,]
    corr_matrix = cor(t(data_matrix_sub), use = 'complete.obs')
    corr_matrix_plot <- plot_corr_matrix(corr_matrix,  flavor = "corrplot")

[Package proBatch version 1.0.0 Index]