Read quality with FastQC

Description

Given a FASTQ or BAM file, this tool produces several quality control plots for the reads.

Parameters

Details

FastQC examines reads for base quality and distribution, duplicates, length, over-represented k-mers, etc. GZip compressed fastq files are automatically detected and unzipped. For a detailed description of the plots, please see the FastQC manual.

Output

An html report with plots and tables produced by the analysis modules. Please note that you have to select the visualization option "Open in external browser".

Reference

This tool is based on the FastQC package by Simon Andrews et al.