README.md

EasyPubPlot - Easy and Publishable Ploting

An interactive, customizable, and coding-free Shiny App to easily create publishable plots for scientific papers. EasyPubPlot is freely available at https://pharmaco-omicslab.shinyapps.io/EasyPubPlot.

App Interface

Example

Install and run locally

EasyPubPlot requires

Step 1: Check and install the necessary packages from CRAN to run EasyPubPlot.

for (pkg in c("remotes", "shiny", "shinyjs", "shinyWidgets", "colourpicker", "bslib", "shinytoastr", "dplyr", "magrittr", "ggplot2", "tibble", "tidyr", "ggthemes", "BiocManager", "circlize")) {
  if (!require(pkg, character.only = TRUE)) {
    install.packages(pkg, dependencies = TRUE)
  }
}

Step 2: Check and install the necessary packages from BiocManager to run EasyPubPlot.

for (pkg in c("EnhancedVolcano", "ComplexHeatmap")) {
  if (!require(pkg, character.only = TRUE)) {
    BiocManager::install(pkg, dependencies = TRUE)
  }
}    

Step 3: Install EasyPubPlot.

remotes::install_github("Pharmaco-OmicsLab/EasyPubPlot")

Step 3: Run EasyPubPlot in your computer.

library(EasyPubPlot)  
runEasyPubPlot()     

Citation

Nguyen Tran Nam Tien, Nguyen Quang Thu, Dong Hyun Kim, Seongoh Park#, Nguyen Phuoc Long#. "EasyPubPlot: a shiny web application for rapid omics data exploration and visualization". bioRxiv. 2024. DOI: 10.1101/2024.11.26.625339.

Contributors

• Primary developer and GitHub maintainer: Nguyen Tran Nam Tien (current)
• Advisor and PI: Seongoh Park, Ph.D. and Nguyen Phuoc Long, M.D., Ph.D.

License

This repository is licensed under the MIT License.