FastQC is a program designed to spot potential problems in high throughput sequencing datasets. It runs a set of analyses on one or more raw sequence files in fastq or bam format and produces a report which summaries the results.
FastQC will highlight any areas where this library looks unusual and where you should take a closer look. The program is not tied to any specific type of sequencing technique and can be used to look at libraries coming from a large number of different experiment types (Genomic Sequencing, ChIP-Seq, RNA-Seq, BS-Seq etc.).
This project page contains the source code for the application and is only really useful to people wanting to develop new functionality or trace bugs in FastQC. If you just want to run the program, then you want to go to the project web page where you can download the compiled packages for Windows, OSX, and Linux.
Official Website: Official releases, documentation, and user guides.
Docker hub: Docker hub
Github: Github repository
This example demonstrates how to perform a FastQC analysis on a sequencing data file. To execute the example, you'll need the FastQ file test.fastq
and the script run_script.sh
.
You can download the necessary files through these links:
Volume
line and upload both test.fastq
and run_script.sh
to the working directory of your project.Working Directory
is set to /data
(or the mounted volume to entered!).Run Script
field, enter run_script.sh
as the input.Create
to prepare your project environment.Following these instructions will initiate the FastQC analysis on test.fastq
, providing valuable insights into the quality of the sequencing data.
Sequencing Data Analysis
Quality Control
Bioinformatics
NGS
Data Quality Assessment