Sequencing databases in Shiny
1
Overview
1.1
Shiny
1.2
Workflow
2
Data Processing
2.1
Preparation
2.2
Species
(optional)
2.3
RData
(option 1)
2.4
Building an SQL database via R
(recommended)
2.4.1
SQL manipulation
2.4.2
Processing multiple files
3
User Interface
3.1
Basic structure
3.2
Header
3.3
Styling
3.4
Sidebar
3.5
Body
3.5.1
Homepage
3.5.2
Grouped comparisons
3.5.3
Individual Analysis
3.5.4
Network page
4
Server
4.1
Requirements
4.2
Server Overview
4.2.1
Side bar
4.2.2
Tab Menu
4.2.3
Grouped comparisons
4.2.4
Individual Analysis
4.3
Network Analysis
4.3.1
Integration with STRING DB
4.4
Functions
4.4.1
Data processing
4.4.2
Dot plots
4.4.3
Line plots
4.4.4
A differential expression dot plot
4.4.5
A volcano plot
4.4.6
Other
5
Deploying your application
5.1
Shinyapps.io
5.2
Bioconductor
6
Troubleshooting
6.1
Package installation
6.2
File setup
6.3
Styling
6.4
Data input/output issues
6.5
Debugging reactive code
6.6
Deployment
6.6.1
Basics
6.6.2
Bioconductor
References
Published with bookdown
Sequencing databases in Shiny
References