FastQC is a quality control tool for high throughput sequence data. A simple way to do 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.

Modern high throughput sequencers can generate tens of millions of sequences in a single run. Before analysing this sequence to draw biological conclusions you should always perform some simple quality control checks to ensure that the raw data looks good and there are no problems or biases in your data which may affect how you can usefully use it.

Most sequencers will generate a QC report as part of their analysis pipeline, but this is usually only focused on identifying problems which were generated by the sequencer itself. FastQC aims to provide a QC report which can spot problems which originate either in the sequencer or in the starting library material.

FastQC can be run in one of two modes. It can either run as a stand alone interactive software for the immediate analysis of small numbers of FastQ files, or it can be run in a non-interactive mode where it would be suitable for integrating into a larger analysis pipeline for the systematic processing of large numbers of files.

FastQC Features:
1. Import of data from BAM, SAM or FastQ files (any variant)
2. Providing a quick overview to tell you in which areas there may be problems
3. Summary graphs and tables to quickly assess your data
4. Export of results to an HTML based permanent report
5. Offline operation to allow automated generation of reports without running the interactive application

Requirements:
* Java

The license of this software is Free, you can free download and free use this calculator software.