Advanced functions |
This chapter is devoted to advanced functions of Alignment Editor. You will learn how to build grid profile, export pictures of alignment, build phylogenetic trees and HMM profiles.
Using UGENE alignment editor you can create statistic profile of multiple sequence alignment.
The Alignment Grid Profile shows positional amino acid or nucleotide counts highlighted according to the frequency of symbols in a row.
To activate Grid Profile use context menu item Statistics->Generate Grid profile
To learn more about this feature please refer to DNA statistics plugin documentation.
You can export your alignment as picture.
Click on the button "Export to picture" on the editor toolbar.
The dialog will appear where you have to set name, location and format of of the picture.
UGENE supports export to PNG, TIFF and JPEG image formats.
The UGENE alignment editor allows users to create phylogenetic trees for the multiple sequence alignment.
To invoke tree building dialog use corresponding editor toolbar button.
The tree building functionality is performed by port of a popular Phylip package.
To learn more about building phylogenetic trees refer to UGENE Tree Viewer documentation pages.
To build HMM profile activate context menu item Advanced->Build HMM profile"
Learn more about more about HMM tool in the documentation pages of HMM2 and HMM3 plugins.
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