A Minimal Book Example
1
Prerequisites
2
Introduction
3
Summary
4
The hardcode - the beta version of the dashboard
4.1
Get the first data of the experiment
4.2
Untar the data.
4.3
Unzipping of the downloaded data
4.4
Make data ready for SummarizedExperiment and DESeq2
4.4.1
Genarating a summarized experiment for (CSV)
4.4.2
Last steps before SummarizedExperiment
4.5
SummarizedExperiment
4.5.1
iSEE
4.6
DESeq2 analysis
4.6.1
The visualization of the dataset
5
The dashboard created with Shiny
5.1
Download function
5.1.1
The working code behind the application.
5.1.2
Shiny
5.2
Downloading supfiles and untar/unzip functions.
5.2.1
The working code behind the application.
5.3
Supplementary files download and make assaydata tab
5.3.1
Shiny
5.4
Groupselection tab
5.5
Build summarized experiment function
5.5.1
The working code behind the application.
5.5.2
Shiny
5.5.3
Make DESeq2 tab
5.5.4
Figures
5.5.5
Download data tab
6
Conclusion
7
Discussion & recommendations
7.1
Functions that needs to be changed every time.
7.2
Recommendations
Published with bookdown
A dashboard for data analysis
A dashboard for data analysis
Sanne en Jelmer
2021-01-31
Chapter1
Prerequisites
Dit is ons boek!