• App1 is a Shiny app designed for RNA-seq, proteomics, metabolomics, and lipidomics data analysis:

  • app.R: Main script for the application.
  • pca_plot.R: Generates PCA visualizations for the PCA tab.
  • DEG_table.R and DEG_fig.R: Handle differential analysis and generate volcano plots and MA plots.
  • heat_deg.R: Creates heatmaps for DEG results.
  • heat_kegg.R: Generates KEGG pathway analysis visualizations.
  • boxplot.R: Produces boxplots for the respective tab.
  • heatmap_plot.R: Handles heatmap visualizations for the Heatmap tab.
  • scatterplot_plot.R: Generates scatterplots for the Scatterplot tab.
  • immune_deconv_table.R: Displays immune deconvolution results for RNA-seq studies.
  • heat_immuneDeconv.R: Creates heatmaps for immune deconvolution results.
  • box_immuneDeconv.R: Generates boxplots to show gene expression for specific cell types.

• App2 is a Shiny app developed specifically for ChIP-seq data analysis.