individual_plots: Individual plotting function for genes

In espors/idepGolem: Integrated Differential Expression and Pathway Analysis

Individual plotting function for genes

Description

Takes in the merged data and other data to provide plots on individual gene names. Depening on the selections this function will either return a barplot from the grouped data or a lineplot from the individual sample.

Usage

individual_plots(
  individual_data,
  sample_info,
  selected_gene,
  gene_plot_box,
  use_sd,
  lab_rotate,
  plots_color_select,
  plot_raw
)

Arguments

individual_data	Data that has been merged with the gene info
sample_info	Matrix of experiment design information for grouping samples
gene_plot_box	TRUE/FALSE for individual sample plot or grouped data plot
use_sd	TRUE/FALSE for standard error or standard deviation bars on bar plot
lab_rotate	Numeric value indicating what angle to rotate the x-axis labels
plots_color_select	Vector of colors for plots
select_gene	List of gene(s) to be plotted

Value

A ggplot object. For gene_plot_box = TRUE the return will be a lineplot for the expression of each individual sample for the selected gene. If gene_plot_box = FALSE the return will be a barplot for the groups provided in the sample information.

See Also

merge_data()

Other plots: PCA_plot(), chr_counts_ggplot(), chr_normalized_ggplot(), cor_plot(), draw_sample_tree(), eda_boxplot(), eda_density(), eda_scatter(), gene_counts_ggplot(), k_means_elbow(), mean_sd_plot(), rRNA_counts_ggplot(), sd_density(), t_SNE_plot(), total_counts_ggplot()

Other preprocess functions: chr_counts_ggplot(), chr_normalized_ggplot(), eda_boxplot(), eda_density(), eda_scatter(), gene_counts_ggplot(), mean_sd_plot(), pre_process(), rRNA_counts_ggplot(), total_counts_ggplot()

espors/idepGolem documentation built on April 23, 2024, 1:11 p.m.