Package fr.ens.biologie.genomique.aozan.fastqscreen

This package contains a module fastqscreen for the contamination detection in each sample of a run.

Since:

1.0

Class Summary

Class	Description
FastqScreen	This class execute fastqscreen pair-end mode or single-end.
FastqScreenGenomes	This class read the alias genome file.
FastqScreenProjectReport	The class set a project HTML report file on detection contamination by compilation report on samples.
FastqScreenPseudoMapReduce	This class account reads that map to each of the reference genome.
FastqScreenResult	This class manages results from fastqscreen.
FastqScreenSAMParser	This class ensures alignment fastqScreen treating the output format BAM of mapper.
GenomeAliases	This class define a storage for genome name aliases.