In LucasFVoges/GRADA: NGS data sequence (adapter) analyser

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GRADA

GRADA is a R-Package to analyze adapter sequences in read files. But it could be used to find any given sequence (string) in a text-based file. It will use the unix "agrep" and "wc" command. Therefore it will only function if these are installed in the system.

How to use?

please refert to the RADME.md in the GIT repository.

You can also look at the example vignette inside this package.

Adapter contamination

The adapter contamination in NGS data is checked during quality control. It is important to do so!^[https://www.future-science.com/doi/10.2144/04372BM03] There are many programms and workflows using adapter recognition, though I missed a simple way for evaluating the success of such methods in regard to quantify the contamination level.

With GRADA it is now possible to achieve this evaluation. And you can combine it with your quality control workflow easely.