Public | Automated Build

Last pushed: 5 months ago
Short Description
This repo provides Ballgown R package as a Shiny framework for differential expression analysis
Full Description

Ballgown_shinyapp

This repo provides RNA seq differential expression package Ballgown as a Shiny framework for interactive data analysis and visualization

Usage:

To run container use the commands below:

Pull the image
$ docker pull kapeel/ballgown_shinyapp

Run a container
$ docker run --rm -p 3838:3838 kapeel/ballgown_shinyapp

After that check with your browser at addresses plus the port 3838
http://host_ip:3838/

Test data:

Full path to your Ballgown directory
http://de.cyverse.org/dl/d/BC814BB3-09AA-4F53-9C5B-226B3F6A6E9D/test.zip

Design Matrix file :
Create a txt file for the experiment design for the test data and upload it to shiny app
ID group reps
IS20351_DS1.sorted DS 1
IS20351_DS2.sorted DS 2
IS20351_DS3.sorted DS 3
IS20351_WW1.sorted WW 1
IS20351_WW2.sorted WW 2
IS20351_WW3.sorted WW 3

Name of the covariate of interest for the differential expression tests;correspond column name of design matrix file
Set the value for this as "group"

Click submit

Docker Pull Command
Owner
kapeel
Source Repository