t_SNE_plot: t-SNE plot

In espors/idepGolem: Integrated Differential Expression and Pathway Analysis

t-SNE plot

Description

Draw a t-distributed stochastic neighbor embedding (t-SNE) plot

Usage

t_SNE_plot(
  data,
  sample_info,
  selected_color = "Names",
  selected_shape = "Names",
  plots_color_select
)

Arguments

data	Matrix of gene data that has been through pre_process()
sample_info	Matrix of sample information from experiment design file
selected_color	String designating factor to color points by. Should be one of the design factors from the design file or "Names" as default which automatically detects groups from gene data file
selected_shape	String designating factor to shape points by. Should be one of the design factors from the design file or "Names" as default which automatically detects groups from gene data file
plots_color_select	Vector of colors for plots

Value

A ggplot object formatted t-SNE plot

See Also

Other PCA functions: MDS_plot(), PCA_Scree(), PCA_biplot(), PCA_plot(), PCA_plot_3d(), PCAtools_eigencorplot(), pc_factor_correlation()

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

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