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Plot Kinase score for Differential Expression data

Source: R/kinase_activity.R
plotKinaseDE.Rd

`plotKinaseDE` generates a bar plot of the top kinases associated with the differentially expressed genes based on their scores.

Usage

plotKinaseDE(scoreTab, nTop = 10, pCut = 0.05)

Arguments

scoreTab

A data frame containing kinase scores with columns source, score, and p_value.

nTop

A numeric value specifying the number of top kinases to plot for each direction. Default is 10.

pCut

A numeric value specifying the p-value cutoff for significance. Default is 0.05.

Value

A ggplot2 object representing the bar plot of kinase score.

Details

The function performs the following steps:

  1. Adds a column for significance based on the p-value cutoff.

  2. Adds a column for the sign of the score.

  3. Filters out kinases with a score of 0.

  4. Selects the top nTop kinases by absolute score for each sign of the score.

  5. Creates a bar plot with the selected kinases.

Examples

# Example usage:
scoreTab <- data.frame(
 source = c("Kinase1", "Kinase2", "Kinase3", "Kinase4"),
 score = c(2.3, -1.5, 0, 3.1),
 p_value = c(0.01, 0.2, 0.05, 0.03)
)
plotKinaseDE(scoreTab, nTop = 3, pCut = 0.05)