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fastqc

FastQC

FastQC aims to provide a simple way to do some quality control checks on raw sequence data coming from high throughput sequencing pipelines. It provides a modular set of analyses which you can use to give a quick impression of whether your data has any problems of which you should be aware before doing any further analysis.

The main functions of FastQC are:

  • Import of data from BAM, SAM or FastQ files (any variant)
  • Providing a quick overview to tell you in which areas there may be problems
  • Summary graphs and tables to quickly assess your data
  • Export of results to an HTML based permanent report
  • Offline operation to allow automated generation of reports without running the interactive application
Support site:
http://www.bioinformatics.babraham.ac.uk/projects/fastqc/
Eligibility
Faculty/Researchers
Staff
Students
License Type
Freeware
Installation instructions

Linux installation instructions

Use modules to load the applications available in the scientific application stack.
Please contact IT Linux Support or open a ticket with the IT Help Desk to install a new version of this application.

Loading FastQC from the scientific application stack
$ module load fastqc
$ fastqc