Quality Control (QC) of Oxford Nanopore data
The initial step of every sequencing project is the quality control step to assess the quality of your sequencing data. It will give you an understanding on how successful your sequencing run was based on certain statistics, e.g., length and quality score distributions of your reads, as well as highlight potential problems with your input DNA/RNA, the sequencing run or the data itself.
The quality control step also gives you information for your data filtering and trimming, i.e., removal of those reads that are too short or too low in quality.
An increasing number of tools is available for sequence data QC and filtering, with different strength and applicaton cases. Here, we will use 2 commonly uwsed tools NanoPlot and NanoFilt written by Wouter de Coster.
Data directory: ~/biosec_course/qc_practical