Welcome to vDiveR User Manual!

Note

This project is under active development.

vDiveR is a DiMA wrapper implemented web-based application, hosted on R Shiny server (https://protocol-viral-diversity.shinyapps.io/DiveR), to ease the visualization of outputs from Diversity Motif Analyser (DiMA; https://github.com/PU-SDS/DiMA). vDiveR allows visualization of the diversity motifs (index, major, minor and unique) for elucidation of the underlying inherent dynamics (Figure. 1).

Additionally, the R source code is publicly accessible from the GitHub repository at https://github.com/pendy05/DiveR (distributed under the MIT license).

Figure 1: vDiveR overview.

Hint

A demonstration video on how to use vDiveR R Shiny App is available here!

Contents

• 1. About
• 2. Terminology
  • 2.1. Diversity Motifs
  • 2.2. Conservation Levels
• 3. vDiveR Usage
  • 3.1. R Shiny App
  • 3.2. Bioconductor Package
    • 3.2.1. Usage
• 4. R Shiny App
  • 4.1. Input File
  • 4.2. Sample Results
    • 4.2.1. Test Data
  • 4.3. Output Summary
    • 4.3.1. Output (Plots and Tables)
• 5. Bioconductor Package
  • 5.1. Input
    • 5.1.1. Sample Dataset
    • 5.1.2. Sample Output
• 6. FAQS