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Trees were visualized and formatted using the interactive Tree of Life tool [ 34].
Multiple sequence alignment was represented using WebLogo and Geneious [ 62]. iTOL (Interactive Tree Of Life) was used for mapping domain architecture on the species tree of bacteria and archaea [ 63].
Phylogenetic trees were visualized and exported using the web-based tool Interactive Tree Of Life (iTol) [ 105].
The exported phylogenetic tree in Newick format was modified in format using an online tool Interactive Tree of Life [ 51].
We visualized the trees using the Interactive Tree of Life website (ITOL) (itol.embl.edu 62.edu 62
Letunic, I. & Bork, P. Interactive Tree of Life v2: online annotation and display of phylogenetic trees made easy.
Similar(18)
Significant SNP-SNP interactions (nominal P <0.01) were detected by using the interactive tree-based method.
While this is a key goal of evolution education (e.g., Maddison et al. 2007; Gregory 2008), by focusing on only creating interactive tree-based imagery we do not take advantage of the full capabilities that digital tools give us to create alternative visual metaphors to depict evolution.
Traditional techniques of plotting phylogenetic trees focus on rendering a single static image, but increases in the production of biological data and large-scale analyses demand scalable, browsable, and interactive trees.
Finally, the use of javascript enables one to harness the power of many popular javascript libraries, such as jQuery [9] and the Yahoo User Interface Library [10], and have the ability to create complex, interactive trees.
Interactive tree-based visualization of epigenetic protein families was embedded to support and facilitate straightforward browsing of the database.
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