Visualization app developed in R using the Shiny package. The objective is to get an easy access to the "Synthetic interkingdom microbial consortia supported by quorum signalling for bioplastic production from agro-industrial waste" data in an interactive way.
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This Shiny R app provides a comprehensive interface for visualizing and analyzing genomic, transcriptomic, and metabolomic data. The app has three main tabs, each dedicated to different types of analyses: Volcano Plots, Gene Search, and Metabolomics.
You can acces throught the shinyapp link here
This tab allows you to visualize differential expression analysis results through volcano plots.
- Reference genome (Organism): Choose between different organisms (e.g., Ophiostoma or KT).
- Analysis Options: Compare organism vs consortium, treatment effects (e.g., FaOH vs CTL), and time effects (early vs late).
- Conditions Selection: Filter the data based on specific treatments and time points.
- Volcano Plot Visualization: The plot displays log2 fold change vs -log10(p-value) with points colored by their differential expression status (upregulated, downregulated, or not significant).
- Values Selection: Adjust log fold-change and p-value thresholds to filter significant genes.
- Results Tables: Lists of over- and under-expressed genes with options to export the data.
This tab allows you to visualize differential expression analysis results through volcano plots.
- Reference genome (Organism): Choose between different organisms (e.g., Ophiostoma or KT).
- Analysis Options: Compare organism vs consortium, treatment effects (e.g., FaOH vs CTL), and time effects (early vs late).
- Conditions Selection: Filter the data based on specific treatments and time points.
- Volcano Plot Visualization: The plot displays log2 fold change vs -log10(p-value) with points colored by their differential expression status (upregulated, downregulated, or not significant).
- Values Selection: Adjust log fold-change and p-value thresholds to filter significant genes.
- Results Tables: Lists of over- and under-expressed genes with options to export the data.
This tab allows you to visualize differential expression analysis results through volcano plots.
- Reference genome (Organism): Choose between different organisms (e.g., Ophiostoma or KT).
- Analysis Options: Compare organism vs consortium, treatment effects (e.g., FaOH vs CTL), and time effects (early vs late).
- Conditions Selection: Filter the data based on specific treatments and time points.
- Volcano Plot Visualization: The plot displays log2 fold change vs -log10(p-value) with points colored by their differential expression status (upregulated, downregulated, or not significant).
- Values Selection: Adjust log fold-change and p-value thresholds to filter significant genes.
- Results Tables: Lists of over- and under-expressed genes with options to export the data.
Contributions are welcome! Please fork the repository and submit a pull request for any enhancements or bug fixes.
Distributed under the MIT License. See LICENSE.txt for more information.