FastQ Screen - Contmaination screening for NGS data sets
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FastQ screen is a simple application which allows you to 
search a large sequence dataset against a panel of different
databases to build up a picture of where the sequences 
in your data originate. It was built as a QC check for
sequencing pipelines but may also have uses in metagenomics
studies where mixed samples are expected.

The FastQ Screen Homepage is found at:
http://www.bioinformatics.babraham.ac.uk/projects/fastq_screen

Full documentation on using the software is provided in the
PDF file 'fastq_screen_documentation.pdf' and the markdown file
'fastq_screen_documentation.md' distributed with the program.