Prepare sequencing data

The first thing to do after data import is to check the quality of the sequencing reads and perform the necessary trimming. This applies no matter whether you are working with Whole Genome Sequencing, Whole Exome Sequencing, Targeted Amplicon Sequencing or Whole Transcriptome Sequencing. In the toolbox you can choose between the two different ready-to-use workflows for data preparation that are shown in the "Run workflow 1" box in figure 11.23.

Image diagram_simple_analyis_preparedata
Figure 11.23: Two ready-to-use workflows are available for data preparation; "Prepare Overlapping Raw Data" and "Prepare Raw data".

Choosing between Prepare Raw Data and Prepare Overlapping Raw Data workflows

The Preparing Raw Data ready-to-use workflow is universal and can be used for all applications; Whole Genome Sequencing, Exome Sequencing, and Targeted Amplicon Sequencing.