Selecting reads and reference

To start the read mapping:

        Toolbox | NGS Core Tools (Image ngsfolder) | Map Reads to Reference (Image read_mapping)

In this dialog, select the sequences or sequence lists containing the sequencing data. Note that the reference sequences should be selected in the next step.

When the sequences are selected, click Next, and you will see the dialog shown in figure 25.1.

Image referenceassembly_step2
Figure 25.1: Specifying the reference sequences and masking.

At the top you select one or more reference sequences by clicking the Browse and select element (Image browse) button. You can select either single sequences, a list of sequences or a sequence track as reference.