Assembling, browsing and analyzing of short reads assemblies
3. SAM/BAM files (Assembly Browser). If you open a file with a short reads assembly, like BAM or SAM files you see the following picture:
![](/wiki/download/attachments/2523429/pic13.png)
Example 3: Highlighting the strand of reads. You can do this using the context menu or the Options Panel.
![](/wiki/download/attachments/2523429/pic14 (3).png)
3D structure viewer
Building and visualizing of phylogenetic trees
Running dozens of algorithms for analyzing
Importing and exporting data into different bio-formats
Combining algorithms into custom workflows with UGENE Workflow Designer