The applications listed here are available for use in the Discovery Environment and are documented in: Discovery Environment Manual.

Discovery Environment Applications List

The box below searches only this space.
To search the entire iPlant wiki, enter your query in the box at the upper right.






Skip to end of metadata
Go to start of metadata


FastQC 0.10.1 (multi-file)

App Creator

Matthew Vaughn

Quick Start

  • To use FastQC 0.10.1 (multi-file), import your data in FASTQ  format.
  • Resources: FastQC

Test Data


Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> fastqc.

Full Path: /iplant/home/shared/iplantcollaborative/example_data/fastqc

Input File(s)

Use SRR070572_hy5.fastq from the directory above as test input.

Parameters Used in App

Only the data file needs to be loaded to run this app.

Output File(s)

Expect a zipped folder containing all of the output. Inside of that folder, there are two folders: Icons and Images. The overall summary is found in a file entitled: SRR070572_hy5.html. Opening this .html file will open up a browser tab and display all output figures.

Related Tutorials

Evaluate and Pre-Process Sequencing Reads (Workflow Tutorial)

Tool Source for App

  • No labels