Welcome to GD2Viz, a powerful and user-friendly visualization tool designed to help researchers and clinicians explore, analyze, and interpret GD2 Scores across various RNA-Seq datasets. Utilizing the advanced methodology outlined by Ustjanzew et al. (2024), GD2Viz offers an in-depth examination of precomputed GD2 Scores from publicly available RNA-Seq datasets such as TCGA, GTEx, and TARGET. Users also have the flexibility to upload and analyze their own datasets within the context of GD2 Scores.
This R Shiny application version of GD2Viz provides a range of interactive visualizations and preloaded datasets. Additionally, the GD2Viz R package includes several functions for computing Reaction Activity Scores of glycosphingolipid metabolism and predicting GD2 Scores directly within the R environment. For comprehensive guidance, refer to the GD2Viz Vignette.
- Interactive Visualizations: Generate dynamic, real-time interactive plots, heatmaps, and network diagrams to thoroughly explore your data.
- GD2 Score Analysis for Large Datasets: Investigate GD2 Scores across extensive datasets like TCGA, TARGET, and GTEx. Dive deep into individual projects within the TCGA dataset and analyze GD2 Scores alongside various sample metadata.
- Predict GD2 Scores for Your Datasets: Effortlessly compute Reaction Activity Scores and GD2 Scores for your datasets, with options to visualize and download the results.
- User-Friendly Interface: Experience smooth navigation with our intuitive and thoughtfully designed user interface.
- Group Comparison: Compare two groups or conditions within your dataset to observe log-fold changes in Reaction Activity Scores of glycosphingolipid metabolism.
You can install the GD2Viz package from GitHub using the following commands in R:
# Install the devtools package if you haven't already
install.packages("devtools")
# Use devtools to install GD2Viz from GitHub
devtools::install_github("arsenij-ust/GD2Viz")After installation, you can load the package and start using it:
library(GD2Viz)
# Launch the Shiny application
GD2Viz()# TODO single steps how to use the package functions...For detailed instructions and examples, please refer to the GD2Viz Vignette.
GD2Viz was developed at the Institute for Medical Biostatistics, Epidemiology, and Informatics (IMBEI) of the University Medical Center of the Johannes Gutenberg University Mainz. The development team includes:
- Arsenij Ustjanzew: Developer
- Federico Marini: Developer
- Claudia Paret: Methodological and Clinical Support
For more information, visit our website or consult the GD2Viz Vignette. If you have any questions or need assistance, please don't hesitate to reach out to our support team.
This project is licensed under the MIT License - see the LICENSE file for details.