Selecting reads and reference
To start the read mapping:
Toolbox | NGS Core Tools (
) | Map Reads to Reference (
)
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. Please note that reads longer than 100,000 bases are not supported.
When the sequences are selected, click Next, and you will see the dialog shown in figure 25.1.
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 (
) button. You can
select either single sequences, a list of sequences or a sequence
track as reference. Note that single reference sequences longer than
2gb (
bases) are not supported.