To build BWA-SW index select the Tools ‣ NGS data analysis ‣ Build index for reads mapping item in the main menu. The Build Index dialog will appears. Set the Align the Map short reads method parameter to BWA-MEM.
The dialog looks as follows:
...
To build BWA-SW index select the Tools ‣ NGS data analysis ‣ Build index for reads mapping item in the main menu. The Build Index dialog will appears. Set the Align the Map short reads method parameter to BWA-MEM.
The dialog looks as follows:
...